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This page was generated on 2022-01-14 13:07:30 -0500 (Fri, 14 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4327
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4076
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4137
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for biodb on machv2


To the developers/maintainers of the biodb package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodb.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 175/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodb 1.2.2  (landing page)
Pierrick Roger
Snapshot Date: 2022-01-13 01:55:04 -0500 (Thu, 13 Jan 2022)
git_url: https://git.bioconductor.org/packages/biodb
git_branch: RELEASE_3_14
git_last_commit: 79469df
git_last_commit_date: 2021-12-10 12:32:56 -0500 (Fri, 10 Dec 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: biodb
Version: 1.2.2
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodb_1.2.2.tar.gz
StartedAt: 2022-01-13 10:38:02 -0500 (Thu, 13 Jan 2022)
EndedAt: 2022-01-13 10:44:18 -0500 (Thu, 13 Jan 2022)
EllapsedTime: 375.9 seconds
RetCode: 0
Status:   OK  
CheckDir: biodb.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodb_1.2.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/biodb.Rcheck’
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodb/DESCRIPTION’ ... OK
* this is package ‘biodb’ version ‘1.2.2’
* 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 ‘biodb’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.1Mb
  sub-directories of 1Mb or more:
    R   3.0Mb
* 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
  ‘/Users/biocbuild/bbs-3.14-bioc/meat/biodb.Rcheck/00check.log’
for details.



Installation output

biodb.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL biodb
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’
* installing *source* package ‘biodb’ ...
** using staged installation
** libs
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/testthat/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/testthat/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c closeMatchPpm.cpp -o closeMatchPpm.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/testthat/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c test-100-ms_matching.cpp -o test-100-ms_matching.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/testthat/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c test-runner.cpp -o test-runner.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o biodb.so RcppExports.o closeMatchPpm.o test-100-ms_matching.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.1/Resources/library/00LOCK-biodb/00new/biodb/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 (biodb)

Tests output

biodb.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-apple-darwin17.0 (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(biodb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodb")
biodb.INFO [2022-01-13 10:40:09.064][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:40:09.082][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 10:40:09.093][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:09.095][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 10:40:09.098][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 10:40:09.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.105][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 10:40:09.150][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 10:40:09.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.189][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 10:40:09.191][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 10:40:09.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.197][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 10:40:09.199][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 10:40:09.201][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 10:40:09.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.208][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 10:40:09.210][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 10:40:09.211][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 10:40:09.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.217][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 10:40:09.219][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 10:40:09.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.225][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 10:40:09.226][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 10:40:09.229][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 10:40:09.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.235][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 10:40:09.237][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 10:40:09.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.244][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 10:40:09.245][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 10:40:09.247][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 10:40:09.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.254][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:09.256][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 10:40:09.257][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 10:40:09.259][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 10:40:09.261][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 10:40:09.264][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 10:40:09.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.269][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[2022-01-13 10:40:09.271][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 10:40:09.273][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 10:40:09.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.281][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 10:40:09.283][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 10:40:09.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.291][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 10:40:09.293][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 10:40:09.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.300][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 10:40:09.302][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 10:40:09.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.307][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[2022-01-13 10:40:09.309][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 10:40:09.311][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 10:40:09.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.319][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:09.321][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 10:40:09.333][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-01-13 10:40:09.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.339][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 10:40:09.341][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 10:40:09.343][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 10:40:09.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.351][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:40:09.412][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.445][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-13 10:40:09.447][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.449][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:09.450][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.452][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.454][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.455][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.457][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:09.459][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:09.461][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.463][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 10:40:09.465][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:09.467][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.469][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.471][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:09.471][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:09.471][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:09.471][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:09.471][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:09.473][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:09.475][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:09.476][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:09.477][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:09.479][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:09.480][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:09.481][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.483][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.485][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:09.486][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:09.488][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.489][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.491][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 10:40:09.494][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.496][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:09.497][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.499][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:09.500][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.502][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.504][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.506][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.508][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:09.509][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:09.510][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.511][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 10:40:09.513][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:09.514][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.516][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.518][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:09.518][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:09.518][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:09.518][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:09.518][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:09.520][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:09.522][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:09.523][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:09.525][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:09.534][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:09.536][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:09.537][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.539][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.541][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:09.543][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:09.544][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.546][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.548][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:40:09.552][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.554][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-13 10:40:09.556][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.558][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:09.560][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.562][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.564][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.566][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.569][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:09.571][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:09.573][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.574][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 10:40:09.576][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:09.578][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.580][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.582][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.585][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:09.587][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:09.588][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:09.591][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:09.593][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:09.595][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:09.597][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.600][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.602][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:09.603][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:09.605][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.607][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.610][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 10:40:09.613][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.615][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:09.618][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.620][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:09.622][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.624][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.626][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.628][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.630][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:09.633][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:09.635][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.637][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 10:40:09.639][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:09.641][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.642][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:09.644][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.646][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:09.648][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:09.649][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:09.651][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:09.653][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:09.654][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:09.656][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:09.658][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.660][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:09.662][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:09.664][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:09.666][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:09.668][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:09.670][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:09.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:09.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:09.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:09.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:09.804][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 10:40:09.807][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 10:40:09.810][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 10:40:09.812][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 10:40:09.814][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 10:40:09.817][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:40:09.820][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:09.823][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:09.825][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 10:40:09.828][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:40:09.830][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:40:09.831][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 10:40:09.834][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:09.837][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:09.840][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 10:40:09.843][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:40:09.845][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 10:40:09.848][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 10:40:09.851][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 10:40:09.854][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 10:40:09.857][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 10:40:09.860][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 10:40:09.863][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 10:40:09.866][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 10:40:09.869][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 10:40:09.872][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 10:40:09.875][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 10:40:09.878][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 10:40:09.881][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 10:40:09.890][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 10:40:09.893][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 10:40:09.894][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 10:40:09.896][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 10:40:09.898][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 10:40:09.901][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 10:40:09.903][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 10:40:09.905][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 10:40:09.907][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 10:40:09.910][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 10:40:09.913][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 10:40:09.917][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 10:40:09.920][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 10:40:09.923][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 10:40:09.926][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 10:40:09.928][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 10:40:09.931][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 10:40:09.934][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 10:40:09.937][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 10:40:09.939][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 10:40:09.941][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 10:40:09.943][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 10:40:09.946][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 10:40:09.949][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 10:40:09.951][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 10:40:09.953][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 10:40:09.956][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 10:40:09.960][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 10:40:09.963][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 10:40:09.966][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 10:40:09.968][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 10:40:09.971][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 10:40:09.973][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 10:40:09.975][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 10:40:09.978][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 10:40:09.981][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 10:40:09.983][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 10:40:09.985][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 10:40:09.987][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 10:40:09.990][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 10:40:09.992][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 10:40:09.995][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 10:40:09.998][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 10:40:10.000][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 10:40:10.002][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 10:40:10.005][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 10:40:10.008][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 10:40:10.010][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 10:40:10.013][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 10:40:10.015][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 10:40:10.018][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 10:40:10.020][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 10:40:10.023][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 10:40:10.026][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 10:40:10.038][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 10:40:10.041][initialize] This is biodb version 1.2.2.
biodb.INFO [2022-01-13 10:40:10.043][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:10.045][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:10.047][biodb::testContext] Test context - Test abstract declaration.
biodb.INFO [2022-01-13 10:40:10.049][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:10.051][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:10.053][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:10.055][biodb::testThat] Running test function  test.abstractClass.declaration  (" An abstract class cannot be instantiated. ").
biodb.INFO [2022-01-13 10:40:10.057][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:10.060][biodb::testThat] 
biodb.ERROR[2022-01-13 10:40:10.065][abstractClass] Class BiodbConnBase is abstract and thus cannot be instantiated.
biodb.INFO [2022-01-13 10:40:10.086][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-13 10:40:10.088][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-13 10:40:10.090][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:10.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:10.094][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:10.096][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.INFO [2022-01-13 10:40:10.105][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:10.107][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:10.109][biodb::testContext] Test context - Testing BiodbUrl.
biodb.INFO [2022-01-13 10:40:10.111][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:10.113][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:10.116][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:10.118][biodb::testThat] Running test function  test_BiodbUrl  (" BiodbUrl works fine. ").
biodb.INFO [2022-01-13 10:40:10.119][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:10.121][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:10.151][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:10.153][biodb::testThat] Running test function  test_biodburl_encoding  (" BiodbUrl encoding works correctly. ").
biodb.INFO [2022-01-13 10:40:10.154][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:10.156][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:10.207][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:10.208][biodb::testThat] Running test function  test_getRCurlContent  (" getRCurlContent() works fine. ").
biodb.INFO [2022-01-13 10:40:10.209][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:10.211][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:10.925][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:10.927][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:10.929][biodb::testContext] Test context - Testing Range class.
biodb.INFO [2022-01-13 10:40:10.931][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:10.933][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:10.935][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:10.937][biodb::testThat] Running test function  test_range  (" Range class works correctly. ").
biodb.INFO [2022-01-13 10:40:10.939][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:10.941][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:11.051][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:40:11.053][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 10:40:11.060][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:11.062][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 10:40:11.064][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 10:40:11.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.070][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 10:40:11.071][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 10:40:11.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.096][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 10:40:11.098][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 10:40:11.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.104][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 10:40:11.105][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 10:40:11.106][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 10:40:11.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.113][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 10:40:11.114][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 10:40:11.115][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 10:40:11.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.121][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 10:40:11.123][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 10:40:11.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.131][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 10:40:11.133][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 10:40:11.135][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 10:40:11.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.142][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 10:40:11.144][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 10:40:11.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.150][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 10:40:11.152][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 10:40:11.153][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 10:40:11.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.159][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:11.161][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 10:40:11.162][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 10:40:11.164][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 10:40:11.165][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 10:40:11.167][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 10:40:11.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.173][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 10:40:11.175][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 10:40:11.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.179][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 10:40:11.181][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 10:40:11.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.188][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 10:40:11.190][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 10:40:11.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.196][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 10:40:11.198][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 10:40:11.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.203][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 10:40:11.205][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 10:40:11.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.211][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:11.212][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 10:40:11.223][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-01-13 10:40:11.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.229][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 10:40:11.230][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 10:40:11.232][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 10:40:11.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.237][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:40:11.240][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.242][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-13 10:40:11.243][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.245][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:11.246][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.248][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.250][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.251][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.253][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:11.254][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:11.255][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.257][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 10:40:11.259][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:11.260][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.262][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.264][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:11.264][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:11.264][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:11.264][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:11.264][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:11.266][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:11.268][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:11.269][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:11.271][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:11.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:11.273][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:11.275][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.276][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.278][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:11.279][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:11.281][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.283][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.286][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 10:40:11.289][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.291][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:11.293][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.295][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:11.296][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.298][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.300][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.301][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.303][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:11.305][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:11.307][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.309][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 10:40:11.310][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:11.312][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.314][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.316][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:11.316][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:11.316][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:11.316][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:11.316][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:11.319][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:11.321][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:11.323][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:11.325][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:11.327][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:11.329][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:11.331][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.333][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.336][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:11.338][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:11.340][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.342][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.344][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:40:11.348][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.350][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-13 10:40:11.351][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.353][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:11.354][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.356][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.357][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.359][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.360][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:11.362][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:11.364][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.366][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 10:40:11.367][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:11.369][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.371][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.380][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.382][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:11.384][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:11.385][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:11.386][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:11.388][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:11.390][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:11.391][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.393][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.395][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:11.396][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:11.397][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.398][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.401][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 10:40:11.404][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.407][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:11.409][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.410][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:11.411][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.413][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.414][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.416][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.418][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:11.420][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:11.421][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.422][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 10:40:11.424][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:11.425][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.426][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:11.428][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.429][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:11.430][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:11.432][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:11.434][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:11.436][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:11.438][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:11.440][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:11.441][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.442][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:11.444][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:11.445][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:11.447][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:11.449][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:11.450][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.507][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[2022-01-13 10:40:11.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.530][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[2022-01-13 10:40:11.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.544][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[2022-01-13 10:40:11.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.559][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[2022-01-13 10:40:11.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:11.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:11.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:11.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:11.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:11.584][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 10:40:11.587][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 10:40:11.590][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 10:40:11.593][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 10:40:11.596][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 10:40:11.599][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:40:11.601][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:11.604][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:11.607][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 10:40:11.609][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:40:11.613][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:40:11.615][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 10:40:11.617][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:11.620][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:11.623][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 10:40:11.627][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:40:11.630][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 10:40:11.633][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 10:40:11.635][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 10:40:11.637][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 10:40:11.639][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 10:40:11.641][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 10:40:11.643][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 10:40:11.644][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 10:40:11.647][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 10:40:11.657][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 10:40:11.660][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 10:40:11.662][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 10:40:11.665][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 10:40:11.668][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 10:40:11.671][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 10:40:11.674][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 10:40:11.677][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 10:40:11.679][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 10:40:11.682][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 10:40:11.684][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 10:40:11.687][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 10:40:11.690][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 10:40:11.693][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 10:40:11.696][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 10:40:11.698][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 10:40:11.700][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 10:40:11.703][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 10:40:11.705][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 10:40:11.708][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 10:40:11.710][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 10:40:11.713][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 10:40:11.715][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 10:40:11.717][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 10:40:11.720][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 10:40:11.723][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 10:40:11.726][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 10:40:11.729][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 10:40:11.732][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 10:40:11.734][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 10:40:11.736][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 10:40:11.739][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 10:40:11.742][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 10:40:11.745][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 10:40:11.747][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 10:40:11.749][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 10:40:11.751][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 10:40:11.754][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 10:40:11.756][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 10:40:11.759][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 10:40:11.762][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 10:40:11.765][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 10:40:11.767][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 10:40:11.769][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 10:40:11.771][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 10:40:11.773][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 10:40:11.776][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 10:40:11.778][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 10:40:11.779][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 10:40:11.781][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 10:40:11.783][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 10:40:11.785][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 10:40:11.786][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 10:40:11.788][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 10:40:11.790][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 10:40:11.792][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 10:40:11.793][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 10:40:11.795][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 10:40:11.797][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 10:40:11.798][initialize] This is biodb version 1.2.2.
biodb.INFO [2022-01-13 10:40:11.800][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:11.801][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:11.802][biodb::testContext] Test context - Test object printing.
biodb.INFO [2022-01-13 10:40:11.804][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:11.806][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:11.807][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:11.808][biodb::testThat] Running test function  test.BiodbMain.print  (" BiodbMain print method returns correct information. ").
biodb.INFO [2022-01-13 10:40:11.810][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:11.811][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:11.821][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:11.822][biodb::testThat] Running test function  test.BiodbCache.print  (" BiodbCache print method returns correct information. ").
biodb.INFO [2022-01-13 10:40:11.824][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:11.826][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:11.837][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:11.839][biodb::testThat] Running test function  test.BiodbConfig.print  (" BiodbConfig print method returns correct information. ").
biodb.INFO [2022-01-13 10:40:11.841][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:11.843][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:11.858][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:11.860][biodb::testThat] Running test function  test.BiodbFactory.print  (" BiodbFactory print method returns correct information. ").
biodb.INFO [2022-01-13 10:40:11.862][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:11.863][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:11.872][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:11.873][biodb::testThat] Running test function  test.BiodbEntry.print  (" BiodbEntry print method returns correct information. ").
biodb.INFO [2022-01-13 10:40:11.875][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:11.877][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:40:11.886][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:40:11.888][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2022-01-13 10:40:11.911][private$loadEntries] Creating entries from ids [1]: "C1".
biodb.DEBUG[2022-01-13 10:40:11.913][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-13 10:40:11.914][conn$getEntryContent] 1 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2022-01-13 10:40:11.917][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:11.918][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:11.920][private$doGetEntryContentFromDb] Entry id: C1
biodb.DEBUG[2022-01-13 10:40:11.923][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-13 10:40:11.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:12.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:12.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:12.013][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.068][self$setField] Set field ms.mode to column(s) ms.mode.
biodb.TRACE[2022-01-13 10:40:12.070][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-13 10:40:12.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-13 10:40:12.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:12.084][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.084][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.086][self$setField] Set field peak.mztheo to column(s) peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.088][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:12.096][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.096][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.096][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.098][self$setField] Set field peak.comp to column(s) peak.comp.
biodb.TRACE[2022-01-13 10:40:12.100][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:12.108][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.108][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.108][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.108][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.110][self$setField] Set field peak.attr to column(s) peak.attr.
biodb.TRACE[2022-01-13 10:40:12.113][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:12.120][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.120][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.120][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.120][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.120][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.122][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-13 10:40:12.125][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:12.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:12.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:12.132][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.132][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.132][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.132][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.132][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.132][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:12.134][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2022-01-13 10:40:12.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:12.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:12.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:12.142][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.142][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.142][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.142][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.142][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.142][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:12.142][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:12.144][self$setField] Set field name to column(s) name.
biodb.TRACE[2022-01-13 10:40:12.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:12.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:12.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:12.153][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.153][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.153][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.153][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.153][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.153][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:12.153][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:12.153][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:12.216][private$doGetEntryContentFromDb] Content of first entry: accession	ms.mode	peak.mztheo	peak.comp	peak.attr	formula	molecular.mass	name
C1	pos	112.07569	P9Z6W410 O	[(M+H)-(H2O)-(NH3)]+	J114L6M62O2	146.10553	Blablaine
biodb.DEBUG[2022-01-13 10:40:12.236][self$createEntryFromContent] Creating Mass spectra CSV File entries from 1 content(s).
biodb.DEBUG[2022-01-13 10:40:12.245][self$createEntryFromContent] Parsing 1 Mass spectra CSV File entries.
biodb.DEBUG[2022-01-13 10:40:12.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:12.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:12.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:12.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:12.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:12.272][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.272][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.272][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.272][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.272][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.272][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:12.272][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:12.272][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:12.274][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.274][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.274][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.274][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.274][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.274][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:12.274][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:12.274][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:12.275][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.275][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.275][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.275][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.275][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.275][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:12.275][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:12.275][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:12.277][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.277][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.277][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.277][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.277][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.277][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:12.277][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:12.277][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:12.279][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.279][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.279][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:12.279][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:12.279][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:12.281][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.281][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.281][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.281][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.281][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.281][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:12.281][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:12.281][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:12.283][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.283][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.283][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.283][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.283][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.283][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:12.283][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:12.283][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:12.284][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:12.284][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:12.284][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:12.284][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:12.284][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:12.284][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:12.284][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:12.284][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.TRACE[2022-01-13 10:40:12.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:12.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:12.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:12.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:12.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.307][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-13 10:40:12.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-13 10:40:12.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.360][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-13 10:40:12.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-13 10:40:12.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.406][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.412][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.428][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.436][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.452][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.460][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.476][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:12.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:12.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.482][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:12.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:12.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.494][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:12.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:12.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:12.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:12.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.526][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:12.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:12.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.531][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:12.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:12.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.544][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.551][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.557][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.564][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.572][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:12.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:12.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.579][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.644][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.650][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.658][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.666][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.677][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.682][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:12.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:12.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.687][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:12.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:12.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.691][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:12.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:12.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.750][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.757][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.764][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:12.765][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-13 10:40:12.767][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-13 10:40:12.769][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-13 10:40:12.771][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:12.773][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:12.775][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.777][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.778][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-13 10:40:12.780][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-13 10:40:12.782][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.784][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.785][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.787][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.789][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.791][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.792][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.793][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.795][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.797][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.798][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.800][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.802][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.804][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.805][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:12.808][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:12.809][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.811][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.813][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:12.814][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:12.815][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.816][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.818][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:12.819][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:12.820][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.821][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.822][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.824][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.825][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.826][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.828][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-13 10:40:12.830][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.832][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.834][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.835][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.837][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.838][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.839][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.840][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.841][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.844][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.846][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.848][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.850][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.851][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.853][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.854][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.855][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-13 10:40:12.856][private$organizeFieldsByGroups] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-13 10:40:12.857][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.859][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.860][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.862][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.864][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.866][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.868][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.870][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.871][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.872][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.873][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.875][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.876][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.878][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.879][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.881][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.883][private$organizeFieldsByGroups] Groups [2]: "character(0), list(peaks = c("peak.mztheo", "peak.comp", "peak.attr", "peak.mz"))"
biodb.TRACE[2022-01-13 10:40:12.885][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.894][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.903][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:12.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.910][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.915][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.920][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:12.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.926][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.931][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.938][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:12.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.945][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.953][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.961][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:12.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:12.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:12.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:12.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:12.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:12.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:12.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:13.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:13.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.006][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:13.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:13.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.011][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:13.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:13.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.017][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:13.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:13.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.022][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:13.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:13.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.031][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:13.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:13.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.038][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:13.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:13.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.043][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:13.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:13.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.050][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:13.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:13.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.058][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:13.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:13.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.066][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:13.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:13.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:13.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:13.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.077][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:13.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:13.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:13.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:13.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:13.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:13.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:13.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:13.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:13.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:13.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:13.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:13.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:13.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:13.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:13.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:13.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:13.136][self$createEntryFromContent] Accession numbers: C1.
biodb.INFO [2022-01-13 10:40:13.157][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2022-01-13 10:40:13.160][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.162][biodb::testThat] Running test function  test.BiodbConn.print  (" BiodbConn print method returns correct information. ").
biodb.INFO [2022-01-13 10:40:13.164][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:13.166][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:40:13.234][super$initialize] Initialize connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:40:13.271][biodb$getFactory()$createConn] Creating new connector comp.csv.file for database class comp.csv.file , with base URL "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.INFO [2022-01-13 10:40:13.369][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.372][biodb::testThat] Running test function  test.BiodbDbsInfo.print  (" BiodbDbsInfo print method returns correct information. ").
biodb.INFO [2022-01-13 10:40:13.374][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:13.376][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.387][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.389][biodb::testThat] Running test function  test.BiodbEntryFields.print  (" BiodbEntryFields print method returns correct information. ").
biodb.INFO [2022-01-13 10:40:13.391][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:13.393][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.400][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2022-01-13 10:40:13.402][self$deleteConn] Connector "comp.csv.file" deleted.
biodb.DEBUG[2022-01-13 10:40:13.404][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-13 10:40:13.406][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:13.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:13.410][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 10:40:13.420][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:13.423][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:13.425][biodb::testContext] Test context - Testing mass functions
biodb.INFO [2022-01-13 10:40:13.427][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:13.429][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:13.431][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.433][biodb::testThat] Running test function  test_convertTolToRange  (" Conversion from tolerance to range works correctly. ").
biodb.INFO [2022-01-13 10:40:13.435][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:13.436][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.465][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.466][biodb::testThat] Running test function  test_closeMatchPpm  (" closeMatchPpm() works correctly. ").
biodb.INFO [2022-01-13 10:40:13.468][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:13.470][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.498][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:13.500][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:13.502][biodb::testContext] Test context - Testing biodb functions
biodb.INFO [2022-01-13 10:40:13.504][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:13.506][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:13.508][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.509][biodb::testThat] Running test function  test_connNameToClassPrefix  (" We can convert a connector name into a class prefix. ").
biodb.INFO [2022-01-13 10:40:13.511][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:13.513][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.521][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.522][biodb::testThat] Running test function  test_extractVersion  (" We can extract the version number from a template file. ").
biodb.INFO [2022-01-13 10:40:13.523][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:13.525][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.540][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:13.542][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:13.544][biodb::testContext] Test context - Testing miscellaneous functions
biodb.INFO [2022-01-13 10:40:13.546][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:13.547][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:13.558][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.560][biodb::testThat] Running test function  test_splitVersion  (" We can split version string. ").
biodb.INFO [2022-01-13 10:40:13.562][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:13.564][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.579][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.581][biodb::testThat] Running test function  test_compareVersions  (" We can compare string versions. ").
biodb.INFO [2022-01-13 10:40:13.583][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:13.584][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:13.627][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:40:13.630][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 10:40:13.638][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:13.640][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 10:40:13.642][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 10:40:13.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.649][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 10:40:13.652][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 10:40:13.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.659][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 10:40:13.661][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 10:40:13.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.669][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 10:40:13.671][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 10:40:13.674][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 10:40:13.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.681][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 10:40:13.683][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 10:40:13.686][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 10:40:13.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.693][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 10:40:13.695][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 10:40:13.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.701][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 10:40:13.702][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 10:40:13.704][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 10:40:13.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.710][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 10:40:13.712][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 10:40:13.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.717][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 10:40:13.719][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 10:40:13.721][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 10:40:13.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.728][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:13.730][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 10:40:13.731][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 10:40:13.733][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 10:40:13.735][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 10:40:13.737][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 10:40:13.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.743][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 10:40:13.744][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 10:40:13.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.751][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 10:40:13.753][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 10:40:13.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.760][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 10:40:13.762][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 10:40:13.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.768][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 10:40:13.770][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 10:40:13.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.777][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 10:40:13.779][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 10:40:13.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.783][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:13.784][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 10:40:13.793][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-01-13 10:40:13.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:13.801][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 10:40:13.803][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 10:40:13.805][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 10:40:13.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:13.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:13.810][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[2022-01-13 10:40:13.811][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:40:13.814][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:13.816][self$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[2022-01-13 10:40:13.818][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.820][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:13.822][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.824][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:13.826][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:13.828][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:13.830][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:13.832][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:13.834][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.836][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 10:40:13.838][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:13.841][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:13.842][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.844][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:13.844][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:13.844][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:13.844][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:13.844][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:13.846][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:13.848][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:13.850][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:13.851][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:13.853][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:13.854][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:13.863][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:13.865][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:13.866][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:13.868][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:13.870][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:13.871][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:13.873][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 10:40:13.875][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:13.876][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:13.878][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.880][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:13.882][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.884][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:13.885][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:13.887][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:13.888][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:13.890][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:13.891][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.893][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 10:40:13.894][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:13.896][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:13.898][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.900][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:13.900][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:13.900][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:13.900][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:13.900][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:13.902][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:13.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:13.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:13.906][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:13.907][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:13.909][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:13.910][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:13.912][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:13.913][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:13.915][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:13.916][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:13.917][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:13.920][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:40:13.923][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.925][self$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[2022-01-13 10:40:13.926][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.928][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:13.929][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.931][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:13.933][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:13.934][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:13.935][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:13.937][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:13.938][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:13.940][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 10:40:13.942][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:13.944][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:13.945][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.947][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:13.949][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:13.951][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:13.953][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:13.955][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:13.957][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:13.958][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:13.960][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:13.962][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:13.964][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:13.966][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:13.968][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:13.969][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:13.972][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 10:40:13.975][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.977][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:13.979][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.981][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:13.982][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:13.984][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:13.985][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:13.987][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:13.989][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:13.991][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:13.993][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:13.994][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 10:40:13.996][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:13.998][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:14.000][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:14.001][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:14.003][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:14.004][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:14.005][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:14.006][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:14.008][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:14.009][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:14.011][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:14.013][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:14.015][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:14.017][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:14.019][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:14.020][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:14.023][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:14.025][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.026][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[2022-01-13 10:40:14.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:14.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:14.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.048][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[2022-01-13 10:40:14.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.056][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[2022-01-13 10:40:14.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:14.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:14.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.078][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[2022-01-13 10:40:14.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.085][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[2022-01-13 10:40:14.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.094][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[2022-01-13 10:40:14.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:14.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:14.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:14.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.131][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[2022-01-13 10:40:14.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:14.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.147][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.DEBUG[2022-01-13 10:40:14.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:14.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:14.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:14.166][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 10:40:14.169][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 10:40:14.171][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 10:40:14.174][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 10:40:14.177][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 10:40:14.180][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:40:14.183][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:14.185][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:14.188][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 10:40:14.191][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:40:14.194][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:40:14.197][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 10:40:14.199][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:14.201][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:14.203][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 10:40:14.205][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:40:14.207][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 10:40:14.210][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 10:40:14.212][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 10:40:14.214][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 10:40:14.216][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 10:40:14.219][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 10:40:14.222][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 10:40:14.224][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 10:40:14.227][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 10:40:14.230][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 10:40:14.232][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 10:40:14.235][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 10:40:14.237][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 10:40:14.239][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 10:40:14.241][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 10:40:14.244][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 10:40:14.246][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 10:40:14.249][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 10:40:14.250][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 10:40:14.252][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 10:40:14.255][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 10:40:14.258][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 10:40:14.261][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 10:40:14.263][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 10:40:14.265][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 10:40:14.267][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 10:40:14.270][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 10:40:14.272][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 10:40:14.275][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 10:40:14.277][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 10:40:14.280][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 10:40:14.282][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 10:40:14.285][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 10:40:14.288][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 10:40:14.290][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 10:40:14.292][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 10:40:14.295][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 10:40:14.297][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 10:40:14.299][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 10:40:14.302][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 10:40:14.305][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 10:40:14.308][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 10:40:14.311][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 10:40:14.314][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 10:40:14.317][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 10:40:14.320][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 10:40:14.322][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 10:40:14.324][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 10:40:14.327][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 10:40:14.330][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 10:40:14.332][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 10:40:14.335][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 10:40:14.338][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 10:40:14.341][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 10:40:14.344][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 10:40:14.346][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 10:40:14.349][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 10:40:14.352][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 10:40:14.355][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 10:40:14.358][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 10:40:14.361][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 10:40:14.363][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 10:40:14.366][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 10:40:14.369][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 10:40:14.371][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 10:40:14.373][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 10:40:14.376][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 10:40:14.378][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 10:40:14.389][initialize] This is biodb version 1.2.2.
biodb.INFO [2022-01-13 10:40:14.391][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:14.393][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:14.394][biodb::testContext] Test context - Test messages.
biodb.INFO [2022-01-13 10:40:14.396][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:14.398][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:14.400][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:14.401][biodb::testThat] Running test function  test.deprecatedMethods  (" Deprecated methods send correct message. ").
biodb.INFO [2022-01-13 10:40:14.402][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:14.404][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:40:14.413][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:40:14.415][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2022-01-13 10:40:14.417][private$loadEntries] Creating entries from ids [1]: "C1".
biodb.DEBUG[2022-01-13 10:40:14.420][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-13 10:40:14.424][conn$getEntryContent] 1 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2022-01-13 10:40:14.426][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:14.428][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:14.430][private$doGetEntryContentFromDb] Entry id: C1
biodb.DEBUG[2022-01-13 10:40:14.432][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-13 10:40:14.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:14.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:14.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:14.442][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.444][self$setField] Set field ms.mode to column(s) ms.mode.
biodb.TRACE[2022-01-13 10:40:14.446][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-13 10:40:14.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-13 10:40:14.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:14.462][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.462][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.464][self$setField] Set field peak.mztheo to column(s) peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.465][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:14.472][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.472][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.472][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.474][self$setField] Set field peak.comp to column(s) peak.comp.
biodb.TRACE[2022-01-13 10:40:14.476][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:14.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:14.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:14.482][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.482][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.482][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.482][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.484][self$setField] Set field peak.attr to column(s) peak.attr.
biodb.TRACE[2022-01-13 10:40:14.486][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:14.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:14.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:14.494][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.494][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.494][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.494][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.494][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.496][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-13 10:40:14.498][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:14.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:14.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:14.503][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.503][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.503][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.503][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.503][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.503][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:14.506][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2022-01-13 10:40:14.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:14.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:14.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:14.515][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.515][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.515][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.515][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.515][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.515][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:14.515][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:14.518][self$setField] Set field name to column(s) name.
biodb.TRACE[2022-01-13 10:40:14.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:14.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:14.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:14.529][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.529][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.529][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.529][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.529][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.529][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:14.529][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:14.529][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:14.536][private$doGetEntryContentFromDb] Content of first entry: accession	ms.mode	peak.mztheo	peak.comp	peak.attr	formula	molecular.mass	name
C1	pos	112.07569	P9Z6W410 O	[(M+H)-(H2O)-(NH3)]+	J114L6M62O2	146.10553	Blablaine
biodb.DEBUG[2022-01-13 10:40:14.557][self$createEntryFromContent] Creating Mass spectra CSV File entries from 1 content(s).
biodb.DEBUG[2022-01-13 10:40:14.559][self$createEntryFromContent] Parsing 1 Mass spectra CSV File entries.
biodb.DEBUG[2022-01-13 10:40:14.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:14.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:14.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:14.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:14.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:14.574][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.574][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.574][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.574][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.574][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.574][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:14.574][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:14.574][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:14.575][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.575][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.575][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.575][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.575][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.575][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:14.575][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:14.575][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:14.577][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.577][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.577][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.577][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.577][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.577][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:14.577][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:14.577][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:14.580][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.580][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.580][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.580][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.580][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.580][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:14.580][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:14.580][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:14.582][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.582][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.582][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.582][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.582][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.582][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:14.582][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:14.582][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:14.584][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.584][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.584][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.584][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.584][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.584][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:14.584][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:14.584][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:14.586][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.586][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.586][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.586][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.586][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.586][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:14.586][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:14.586][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:14.589][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:14.589][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-13 10:40:14.589][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-13 10:40:14.589][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-13 10:40:14.589][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-13 10:40:14.589][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:14.589][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:14.589][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.TRACE[2022-01-13 10:40:14.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:14.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:14.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:14.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:14.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.615][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-13 10:40:14.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-13 10:40:14.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.622][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-13 10:40:14.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-13 10:40:14.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.637][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.644][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.660][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:14.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:14.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.672][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:14.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:14.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.685][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:14.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:14.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.693][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:14.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:14.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.706][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:14.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:14.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.713][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:14.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:14.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:14.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:14.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:14.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:14.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.749][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:14.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:14.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.757][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:14.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:14.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.774][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.783][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.792][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.801][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.810][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:14.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:14.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.817][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.826][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.834][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.841][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.849][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.864][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.872][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:14.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:14.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.879][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:14.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:14.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.887][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:14.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:14.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.896][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.903][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.911][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:14.913][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-13 10:40:14.915][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-13 10:40:14.916][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-13 10:40:14.918][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:14.921][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:14.923][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.925][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.927][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-13 10:40:14.929][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-13 10:40:14.931][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.933][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.935][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.936][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:14.938][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.940][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.942][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:14.944][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:14.946][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.955][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.958][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:14.960][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:14.962][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.963][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.965][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:14.968][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:14.970][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.971][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.973][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:14.975][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:14.978][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.980][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.982][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:14.984][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:14.986][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.988][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.990][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.992][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:14.994][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:14.996][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:14.998][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-13 10:40:15.000][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:15.002][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:15.004][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.005][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.007][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:15.009][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:15.011][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.013][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.015][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.017][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.019][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.020][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.022][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.024][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.027][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.028][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.030][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-13 10:40:15.032][private$organizeFieldsByGroups] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-13 10:40:15.034][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:15.036][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:15.038][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.040][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.041][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:15.044][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:15.045][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.047][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.049][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.051][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.053][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.055][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.057][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.059][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.061][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.063][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.065][private$organizeFieldsByGroups] Groups [2]: "character(0), list(peaks = c("peak.mztheo", "peak.comp", "peak.attr", "peak.mz"))"
biodb.TRACE[2022-01-13 10:40:15.067][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:15.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:15.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.074][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:15.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:15.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.082][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:15.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:15.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.090][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:15.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:15.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.098][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:15.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:15.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.104][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-13 10:40:15.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-13 10:40:15.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.113][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.121][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.130][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.137][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.144][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.152][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:15.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:15.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:15.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:15.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:15.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:15.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.184][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:15.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:15.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.191][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.199][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.206][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.214][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:15.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.221][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.228][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.234][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-13 10:40:15.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.248][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:15.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:15.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.255][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:15.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:15.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:15.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:15.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.271][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:15.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:15.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:15.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:15.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:15.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:15.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:15.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:15.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:15.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:15.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:15.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:15.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:15.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:15.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:15.326][self$createEntryFromContent] Accession numbers: C1.
biodb.DEBUG[2022-01-13 10:40:15.350][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2022-01-13 10:40:15.352][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:15.354][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:15.378][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2022-01-13 10:40:15.378][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2022-01-13 10:40:15.379][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:15.380][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:15.412][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2022-01-13 10:40:15.412][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2022-01-13 10:40:15.414][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:15.416][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.WARN [2022-01-13 10:40:15.445][self$searchForEntries] This database is not searchable by field "name".
biodb.TRACE[2022-01-13 10:40:15.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:15.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:15.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:15.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:15.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:15.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:15.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 10:40:15.483][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2022-01-13 10:40:15.486][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:15.488][biodb::testThat] Running test function  test.default.messages  (" Test what messages are printed by default. ").
biodb.INFO [2022-01-13 10:40:15.490][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:15.492][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:15.553][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-13 10:40:15.555][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-13 10:40:15.556][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:15.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:15.559][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 10:40:15.578][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:40:15.581][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 10:40:15.587][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:15.589][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 10:40:15.592][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 10:40:15.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.598][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 10:40:15.599][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 10:40:15.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.605][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 10:40:15.607][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 10:40:15.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.613][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 10:40:15.615][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 10:40:15.617][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 10:40:15.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.624][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 10:40:15.625][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 10:40:15.627][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 10:40:15.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.634][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 10:40:15.636][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 10:40:15.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.642][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 10:40:15.644][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 10:40:15.646][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 10:40:15.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.654][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 10:40:15.656][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 10:40:15.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.662][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 10:40:15.664][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 10:40:15.666][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 10:40:15.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.674][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:15.675][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 10:40:15.677][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 10:40:15.678][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 10:40:15.680][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 10:40:15.681][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 10:40:15.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.688][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 10:40:15.690][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 10:40:15.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.696][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 10:40:15.698][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 10:40:15.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.705][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 10:40:15.707][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 10:40:15.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.714][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 10:40:15.715][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 10:40:15.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.722][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 10:40:15.724][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 10:40:15.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.731][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:15.733][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 10:40:15.744][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-01-13 10:40:15.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.759][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 10:40:15.760][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 10:40:15.762][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 10:40:15.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.769][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:40:15.773][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.775][self$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[2022-01-13 10:40:15.777][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.779][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:15.781][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.783][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.786][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.788][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.790][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:15.791][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:15.793][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.795][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 10:40:15.798][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:15.800][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.802][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.803][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:15.803][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:15.803][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:15.803][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:15.803][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:15.805][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:15.806][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:15.808][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:15.810][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:15.812][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:15.814][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:15.815][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.817][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.819][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:15.821][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:15.823][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.825][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.828][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 10:40:15.831][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.834][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:15.836][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.837][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:15.839][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.842][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.844][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.845][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.847][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:15.849][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:15.851][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.853][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 10:40:15.855][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:15.857][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.859][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.861][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:15.861][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:15.861][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:15.861][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:15.861][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:15.863][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:15.864][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:15.865][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:15.867][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:15.869][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:15.870][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:15.872][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.873][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.874][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:15.876][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:15.878][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.880][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.882][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:40:15.886][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.888][self$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[2022-01-13 10:40:15.890][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.891][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:15.893][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.895][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.897][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.899][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.901][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:15.903][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:15.905][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.907][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 10:40:15.909][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:15.911][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.913][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.914][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.915][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:15.917][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:15.918][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:15.919][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:15.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:15.923][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:15.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.927][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.929][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:15.930][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:15.932][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.934][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.937][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 10:40:15.940][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.941][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:15.943][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.945][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:15.946][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.948][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.949][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.951][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.953][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:15.955][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:15.957][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.959][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 10:40:15.961][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:15.963][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.965][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:15.967][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.968][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:15.970][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:15.971][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:15.972][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:15.974][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:15.975][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:15.977][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:15.978][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.979][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:15.980][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:15.982][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:15.984][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:15.987][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:15.988][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:15.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:15.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:15.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:15.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:15.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.030][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[2022-01-13 10:40:16.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.043][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[2022-01-13 10:40:16.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.066][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[2022-01-13 10:40:16.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.088][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[2022-01-13 10:40:16.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.108][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[2022-01-13 10:40:16.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.121][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 10:40:16.124][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 10:40:16.127][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 10:40:16.129][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 10:40:16.131][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 10:40:16.134][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:40:16.136][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:16.138][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:16.140][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 10:40:16.143][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:40:16.146][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:40:16.148][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 10:40:16.151][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:16.153][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:16.155][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 10:40:16.158][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:40:16.161][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 10:40:16.163][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 10:40:16.166][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 10:40:16.168][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 10:40:16.169][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 10:40:16.172][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 10:40:16.175][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 10:40:16.177][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 10:40:16.180][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 10:40:16.182][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 10:40:16.184][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 10:40:16.186][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 10:40:16.189][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 10:40:16.192][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 10:40:16.194][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 10:40:16.196][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 10:40:16.199][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 10:40:16.202][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 10:40:16.204][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 10:40:16.206][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 10:40:16.210][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 10:40:16.212][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 10:40:16.214][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 10:40:16.216][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 10:40:16.219][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 10:40:16.221][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 10:40:16.224][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 10:40:16.227][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 10:40:16.230][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 10:40:16.233][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 10:40:16.235][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 10:40:16.238][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 10:40:16.241][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 10:40:16.243][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 10:40:16.246][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 10:40:16.249][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 10:40:16.252][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 10:40:16.255][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 10:40:16.258][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 10:40:16.261][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 10:40:16.263][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 10:40:16.274][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 10:40:16.277][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 10:40:16.280][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 10:40:16.282][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 10:40:16.285][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 10:40:16.288][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 10:40:16.291][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 10:40:16.294][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 10:40:16.297][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 10:40:16.300][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 10:40:16.302][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 10:40:16.305][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 10:40:16.308][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 10:40:16.310][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 10:40:16.312][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 10:40:16.314][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 10:40:16.317][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 10:40:16.319][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 10:40:16.321][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 10:40:16.323][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 10:40:16.326][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 10:40:16.329][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 10:40:16.332][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 10:40:16.334][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 10:40:16.337][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 10:40:16.339][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 10:40:16.342][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 10:40:16.345][initialize] This is biodb version 1.2.2.
biodb.INFO [2022-01-13 10:40:16.347][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:16.349][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:16.351][biodb::testContext] Test context - Test config.
biodb.INFO [2022-01-13 10:40:16.353][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:16.355][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:16.357][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:16.359][biodb::testThat] Running test function  test.listKeys  (" Keys are listed correctly. ").
biodb.INFO [2022-01-13 10:40:16.361][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:16.363][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:16.387][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-13 10:40:16.388][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-13 10:40:16.390][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.393][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 10:40:16.403][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:16.405][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:16.407][biodb::testContext] Test context - Test persistent cache.
biodb.INFO [2022-01-13 10:40:16.408][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:16.410][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:16.421][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:40:16.424][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 10:40:16.431][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:16.432][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 10:40:16.434][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 10:40:16.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.441][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 10:40:16.443][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 10:40:16.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.449][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 10:40:16.451][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 10:40:16.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.458][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 10:40:16.460][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 10:40:16.462][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 10:40:16.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.469][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 10:40:16.471][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 10:40:16.473][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 10:40:16.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.479][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 10:40:16.480][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 10:40:16.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.487][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 10:40:16.488][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 10:40:16.490][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 10:40:16.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.497][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 10:40:16.499][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 10:40:16.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.506][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 10:40:16.507][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 10:40:16.509][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 10:40:16.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.516][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:16.518][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 10:40:16.519][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 10:40:16.520][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 10:40:16.522][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 10:40:16.524][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 10:40:16.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.530][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 10:40:16.532][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 10:40:16.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.548][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 10:40:16.550][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 10:40:16.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.556][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 10:40:16.558][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 10:40:16.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.565][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 10:40:16.567][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 10:40:16.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.574][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 10:40:16.576][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 10:40:16.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.583][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:16.585][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 10:40:16.596][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-01-13 10:40:16.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.601][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 10:40:16.603][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 10:40:16.605][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 10:40:16.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.611][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:40:16.614][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.616][self$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[2022-01-13 10:40:16.618][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.619][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:16.621][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.623][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.625][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.627][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.629][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:16.631][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:16.633][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.635][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 10:40:16.637][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:16.638][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.640][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.642][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:16.642][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:16.642][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:16.642][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:16.642][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:16.644][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:16.645][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:16.647][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:16.648][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:16.649][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:16.650][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:16.652][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.653][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.655][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:16.657][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:16.658][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.660][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.662][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 10:40:16.664][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.665][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:16.667][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.669][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:16.671][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.673][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.675][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.676][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.677][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:16.679][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:16.680][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.682][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 10:40:16.683][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:16.685][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.686][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.688][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:16.688][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:16.688][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:16.688][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:16.688][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:16.690][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:16.692][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:16.693][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:16.695][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:16.697][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:16.698][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:16.700][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.701][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.703][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:16.704][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:16.705][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.707][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.709][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:40:16.711][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.713][self$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[2022-01-13 10:40:16.715][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.717][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:16.719][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.721][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.723][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.724][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.725][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:16.727][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:16.729][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.731][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 10:40:16.733][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:16.735][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.736][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.738][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.739][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:16.740][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:16.741][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:16.742][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:16.743][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:16.744][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:16.746][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.747][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.748][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:16.750][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:16.752][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.753][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.755][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 10:40:16.758][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.759][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:16.761][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.763][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:16.765][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.767][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.769][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.770][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.772][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:16.773][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:16.774][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.775][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 10:40:16.777][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:16.779][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.780][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:16.782][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.783][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:16.785][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:16.786][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:16.793][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:16.795][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:16.797][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:16.799][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:16.800][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.802][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:16.803][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:16.805][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:16.807][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:16.809][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:16.811][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.813][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[2022-01-13 10:40:16.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.826][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[2022-01-13 10:40:16.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.848][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[2022-01-13 10:40:16.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.865][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[2022-01-13 10:40:16.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:16.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:16.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:16.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:16.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:16.941][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 10:40:16.942][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 10:40:16.945][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 10:40:16.947][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 10:40:16.949][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 10:40:16.950][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:40:16.953][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:16.956][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:16.959][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 10:40:16.962][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:40:16.964][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:40:16.967][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 10:40:16.969][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:16.972][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:16.974][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 10:40:16.976][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:40:16.979][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 10:40:16.981][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 10:40:16.983][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 10:40:16.985][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 10:40:16.987][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 10:40:16.989][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 10:40:16.992][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 10:40:16.994][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 10:40:16.997][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 10:40:17.000][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 10:40:17.002][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 10:40:17.005][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 10:40:17.008][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 10:40:17.010][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 10:40:17.013][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 10:40:17.015][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 10:40:17.017][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 10:40:17.019][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 10:40:17.021][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 10:40:17.024][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 10:40:17.034][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 10:40:17.037][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 10:40:17.040][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 10:40:17.042][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 10:40:17.044][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 10:40:17.046][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 10:40:17.049][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 10:40:17.052][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 10:40:17.056][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 10:40:17.058][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 10:40:17.061][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 10:40:17.065][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 10:40:17.067][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 10:40:17.069][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 10:40:17.072][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 10:40:17.075][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 10:40:17.078][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 10:40:17.081][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 10:40:17.084][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 10:40:17.087][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 10:40:17.090][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 10:40:17.092][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 10:40:17.094][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 10:40:17.096][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 10:40:17.099][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 10:40:17.102][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 10:40:17.104][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 10:40:17.106][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 10:40:17.108][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 10:40:17.110][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 10:40:17.113][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 10:40:17.116][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 10:40:17.119][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 10:40:17.121][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 10:40:17.123][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 10:40:17.124][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 10:40:17.126][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 10:40:17.128][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 10:40:17.131][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 10:40:17.134][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 10:40:17.137][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 10:40:17.139][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 10:40:17.142][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 10:40:17.145][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 10:40:17.148][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 10:40:17.151][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 10:40:17.154][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 10:40:17.157][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 10:40:17.159][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:40:17.161][biodb$getConfig()$set] Set key use.cache.for.local.db to TRUE.
biodb.DEBUG[2022-01-13 10:40:17.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:17.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:17.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:17.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:17.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:17.168][biodb$getConfig()$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 10:40:17.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:17.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:17.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:17.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:17.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 10:40:17.177][biodb$getPersistentCache()$erase] Erasing cache "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb".
biodb.DEBUG[2022-01-13 10:40:17.456][super$initialize] Initialize connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:40:17.458][biodb$getFactory()$createConn] Creating new connector comp.csv.file for database class comp.csv.file , with base URL "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.INFO [2022-01-13 10:40:17.460][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:17.462][biodb::testThat] Running test function  test_cacheFiles  (" We can list cache files. ").
biodb.INFO [2022-01-13 10:40:17.464][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:17.465][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:17.469][private$initDb] Loading file database "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-13 10:40:17.473][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-13 10:40:17.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:17.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:17.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:17.482][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.485][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-13 10:40:17.486][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:17.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:17.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:17.494][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.494][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.496][self$setField] Set field monoisotopic.mass to column(s) monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:17.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:17.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:17.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:17.505][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.505][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.505][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.508][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2022-01-13 10:40:17.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:17.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:17.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:17.517][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.517][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.517][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.517][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.520][self$setField] Set field kegg.compound.id to column(s) kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:17.521][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:17.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:17.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:17.528][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.528][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.528][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.528][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.528][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.531][self$setField] Set field name to column(s) name.
biodb.TRACE[2022-01-13 10:40:17.533][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:17.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:17.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:17.541][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.541][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.541][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.541][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.541][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.541][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:17.544][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2022-01-13 10:40:17.546][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:17.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:17.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:17.553][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.553][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.553][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.553][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.553][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.553][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:17.553][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:17.555][self$setField] Set field description to column(s) description.
biodb.TRACE[2022-01-13 10:40:17.556][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:17.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:17.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:17.573][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.573][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.573][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.573][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.573][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.573][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:17.573][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:17.573][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.INFO [2022-01-13 10:40:17.591][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108" for "comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.DEBUG[2022-01-13 10:40:17.593][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108 using pattern ^.*\.tsv$.
biodb.DEBUG[2022-01-13 10:40:17.597][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-13 10:40:17.600][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-13 10:40:17.603][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-13 10:40:17.606][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-13 10:40:17.608][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 10:40:17.610][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:40:17.612][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-13 10:40:17.614][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:17.616][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:17.617][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-13 10:40:17.631][private$doGetEntryContentFromDb] Content of first entry: accession	formula	monoisotopic.mass	molecular.mass	kegg.compound.id	name	smiles	description
1018	C2H8AsNO3	168.97201	169.012	C07279	2-Aminoethylarsonate	NCC[As](O)(O)=O	
biodb.TRACE[2022-01-13 10:40:17.673][private$doSaveContentToFile] Saving to cache [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1018.tsv, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1390.tsv, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1456.tsv"
biodb.DEBUG[2022-01-13 10:40:17.683][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 10:40:17.704][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-13 10:40:17.706][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-13 10:40:17.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:17.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:17.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:17.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:17.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:17.721][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.721][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.721][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.721][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.721][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.721][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:17.721][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:17.721][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:17.722][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.722][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.722][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.722][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.722][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.722][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:17.722][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:17.722][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:17.724][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.724][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.724][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.724][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.724][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.724][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:17.724][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:17.724][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:17.727][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.727][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.727][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.727][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.727][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.727][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:17.727][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:17.727][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:17.729][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.729][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.729][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.729][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.729][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.729][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:17.729][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:17.729][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:17.731][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.731][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.731][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.731][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.731][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.731][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:17.731][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:17.731][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:17.733][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.733][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.733][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.733][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.733][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.733][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:17.733][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:17.733][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:17.735][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:17.735][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:17.735][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:17.735][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:17.735][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:17.735][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:17.735][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:17.735][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.TRACE[2022-01-13 10:40:17.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:17.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:17.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:17.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:17.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.755][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:17.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:17.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.762][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:17.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:17.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:17.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:17.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:17.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:17.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:17.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:17.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:17.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:17.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.815][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:17.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:17.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.822][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:17.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:17.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:17.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:17.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:17.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:17.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.876][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:17.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:17.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:17.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:17.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.895][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:17.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:17.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.904][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:17.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:17.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.915][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:17.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:17.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.923][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:17.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:17.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:17.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:17.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:17.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:17.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:17.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:17.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:17.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:17.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:17.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:17.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:17.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:17.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:17.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:17.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:17.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:17.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:17.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:17.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:17.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:17.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.015][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:18.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:18.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.023][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:18.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:18.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:18.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:18.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:18.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:18.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:18.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:18.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:18.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:18.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.075][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:18.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:18.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.082][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:18.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:18.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:18.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:18.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:18.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:18.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.122][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:18.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:18.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.127][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:18.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:18.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.136][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:18.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:18.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.141][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:18.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:18.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.150][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.155][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.164][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:18.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:18.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:18.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:18.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:18.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:18.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.223][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:18.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:18.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.231][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:18.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:18.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:18.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:18.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:18.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:18.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:18.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:18.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:18.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:18.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.285][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:18.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:18.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.292][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:18.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:18.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:18.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:18.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.316][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:18.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:18.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:18.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:18.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.336][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:18.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:18.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.348][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:18.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:18.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.356][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:18.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:18.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.372][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.380][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.395][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:18.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:18.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:18.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:18.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:18.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:18.566][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.DEBUG[2022-01-13 10:40:18.602][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108 using pattern ^.*\.tsv$.
biodb.DEBUG[2022-01-13 10:40:18.617][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108 using pattern ^.*\.tsv$.
biodb.DEBUG[2022-01-13 10:40:18.619][cache$listFiles] Extracting accession number from file names associated with comp.csv.file-cfc735974ea993fdc17554cac406c108 using pattern ^(.*)\.tsv$
biodb.DEBUG[2022-01-13 10:40:18.621][cache$listFiles] files = 1018.tsv, 1390.tsv, 1456.tsv
biodb.INFO [2022-01-13 10:40:18.628][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:18.629][biodb::testThat] Running test function  test_deleteFilesForWrongCacheId  (" We got a warning if we try to delete files for a cache.id that has no associated folder. ").
biodb.INFO [2022-01-13 10:40:18.630][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:18.631][biodb::testThat] 
biodb.WARN [2022-01-13 10:40:18.639][self$getFolderPath] No cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/foo-1234567890abcdef01234" exists for "foo-1234567890abcdef01234".
biodb.INFO [2022-01-13 10:40:18.643][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:18.645][biodb::testThat] Running test function  test_filesExistForConn  (" We detect if cache files exist for a connector ").
biodb.INFO [2022-01-13 10:40:18.647][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:18.649][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:18.656][cache$deleteAllFiles] Erasing all files in "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.INFO [2022-01-13 10:40:18.660][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108" for "comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.INFO [2022-01-13 10:40:18.666][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:18.667][biodb::testThat] Running test function  test_noFilesExist  (" No cache files exist for unknown cache ID. ").
biodb.INFO [2022-01-13 10:40:18.669][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:18.670][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:18.674][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/foo-1234567890abcdef01234" for "foo-1234567890abcdef01234".
biodb.INFO [2022-01-13 10:40:18.680][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:18.682][biodb::testThat] Running test function  test_usedCacheIds  (" We can a list of used cache IDs ").
biodb.INFO [2022-01-13 10:40:18.683][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:18.685][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:40:18.739][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-13 10:40:18.836][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-13 10:40:18.877][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-13 10:40:18.879][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-13 10:40:18.881][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 10:40:18.883][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:40:18.885][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-13 10:40:18.886][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:18.888][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:18.890][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-13 10:40:18.902][private$doGetEntryContentFromDb] Content of first entry: accession	formula	monoisotopic.mass	molecular.mass	kegg.compound.id	name	smiles	description
1018	C2H8AsNO3	168.97201	169.012	C07279	2-Aminoethylarsonate	NCC[As](O)(O)=O	
biodb.TRACE[2022-01-13 10:40:18.941][private$doSaveContentToFile] Saving to cache [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1018.tsv, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1390.tsv, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1456.tsv"
biodb.DEBUG[2022-01-13 10:40:18.949][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 10:40:19.009][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-13 10:40:19.012][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-13 10:40:19.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:19.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:19.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:19.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:19.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:19.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.047][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:19.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:19.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.055][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:19.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:19.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.123][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.132][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:19.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:19.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:19.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:19.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.167][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:19.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:19.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.174][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:19.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:19.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.190][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:19.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:19.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.198][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:19.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:19.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.212][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.219][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.233][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:19.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:19.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:19.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:19.270][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:19.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:19.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.299][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:19.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:19.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.306][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:19.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:19.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.362][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.369][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.386][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:19.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:19.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.392][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:19.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:19.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.407][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:19.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:19.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.415][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:19.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:19.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.430][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:19.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:19.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.438][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:19.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:19.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.454][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.461][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.475][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:19.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:19.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:19.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:19.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:19.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:19.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.545][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:19.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:19.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.553][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:19.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:19.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:19.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.610][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.618][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:19.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.638][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:19.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:19.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.645][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:19.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:19.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.661][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:19.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:19.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.668][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:19.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:19.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.680][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:19.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:19.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.685][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:19.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:19.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.696][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.704][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.716][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:19.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:19.815][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-13 10:40:19.837][cache$deleteAllFiles] Erasing all files in "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.INFO [2022-01-13 10:40:19.845][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:19.848][biodb::testThat] Running test function  test_deleteAllFiles  (" We can delete all cache files for a connector ").
biodb.INFO [2022-01-13 10:40:19.850][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:19.851][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:40:19.857][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-13 10:40:19.859][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-13 10:40:19.863][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.INFO [2022-01-13 10:40:19.864][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108" for "comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.TRACE[2022-01-13 10:40:19.866][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-13 10:40:19.867][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 10:40:19.869][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:40:19.870][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-13 10:40:19.871][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:19.872][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:19.873][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-13 10:40:19.891][private$doGetEntryContentFromDb] Content of first entry: accession	formula	monoisotopic.mass	molecular.mass	kegg.compound.id	name	smiles	description
1018	C2H8AsNO3	168.97201	169.012	C07279	2-Aminoethylarsonate	NCC[As](O)(O)=O	
biodb.TRACE[2022-01-13 10:40:19.904][private$doSaveContentToFile] Saving to cache [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1018.tsv, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1390.tsv, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1456.tsv"
biodb.DEBUG[2022-01-13 10:40:19.911][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 10:40:19.927][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-13 10:40:19.929][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-13 10:40:19.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:19.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:19.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:19.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:19.937][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[2022-01-13 10:40:19.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:19.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:19.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.965][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:19.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:19.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.971][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:19.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:19.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:19.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:19.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:19.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.027][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.035][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.048][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:20.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:20.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.055][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:20.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:20.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.069][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:20.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:20.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.077][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:20.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:20.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.088][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:20.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:20.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.096][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:20.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:20.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.111][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.119][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.140][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:20.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:20.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:20.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:20.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:20.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:20.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.203][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:20.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:20.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.212][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:20.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:20.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.273][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.278][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:20.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:20.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:20.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:20.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.312][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:20.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:20.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.320][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:20.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:20.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.330][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:20.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:20.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.337][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:20.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:20.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.350][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.357][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.377][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:20.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:20.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:20.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:20.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:20.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:20.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.447][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:20.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:20.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.453][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:20.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:20.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.508][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.517][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.531][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:20.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:20.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.537][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:20.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:20.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.550][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:20.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:20.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.556][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:20.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:20.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.565][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:20.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:20.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.570][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:20.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:20.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.579][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.585][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.594][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:20.683][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-13 10:40:20.692][cache$deleteAllFiles] Erasing all files in "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.INFO [2022-01-13 10:40:20.695][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108" for "comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.DEBUG[2022-01-13 10:40:20.701][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-13 10:40:20.702][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-13 10:40:20.705][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-13 10:40:20.707][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-13 10:40:20.709][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 10:40:20.711][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:40:20.713][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-13 10:40:20.715][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:20.717][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:20.719][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-13 10:40:20.733][private$doGetEntryContentFromDb] Content of first entry: accession	formula	monoisotopic.mass	molecular.mass	kegg.compound.id	name	smiles	description
1018	C2H8AsNO3	168.97201	169.012	C07279	2-Aminoethylarsonate	NCC[As](O)(O)=O	
biodb.TRACE[2022-01-13 10:40:20.751][private$doSaveContentToFile] Saving to cache [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1018.tsv, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1390.tsv, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108/1456.tsv"
biodb.DEBUG[2022-01-13 10:40:20.761][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 10:40:20.783][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-13 10:40:20.786][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-13 10:40:20.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:20.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:20.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:20.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:20.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:20.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:20.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:20.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.827][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:20.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:20.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.836][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:20.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:20.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:20.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:20.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.904][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.911][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:20.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.923][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:20.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:20.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.931][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:20.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:20.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.943][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:20.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:20.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.950][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:20.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:20.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.965][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:20.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:20.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.973][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:20.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:20.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.988][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:20.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:20.995][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:20.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.009][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:21.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:21.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:21.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:21.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:21.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.074][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:21.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:21.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.081][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:21.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:21.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:21.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:21.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:21.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:21.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:21.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:21.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:21.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:21.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.142][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:21.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:21.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.149][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:21.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:21.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:21.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:21.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:21.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:21.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.183][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:21.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:21.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.188][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:21.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:21.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.198][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:21.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:21.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.206][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:21.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:21.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.215][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.220][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.229][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:21.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:21.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:21.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:21.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:21.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.283][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:21.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:21.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.291][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:21.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:21.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:21.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:21.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:21.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:21.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:21.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:21.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:21.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:21.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.358][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:21.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:21.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.366][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:21.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:21.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:21.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:21.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.392][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:21.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:21.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.407][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:21.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:21.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.414][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:21.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:21.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.430][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:21.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:21.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.437][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:21.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:21.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.449][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.458][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.473][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:21.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:21.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:21.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:21.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:21.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:21.578][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-13 10:40:21.602][cache$deleteAllFiles] Erasing all files in "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.INFO [2022-01-13 10:40:21.605][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108" for "comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.INFO [2022-01-13 10:40:21.610][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2022-01-13 10:40:21.617][self$deleteConn] Connector "comp.csv.file" deleted.
biodb.DEBUG[2022-01-13 10:40:21.618][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-13 10:40:21.620][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:21.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:21.622][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 10:40:21.636][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:40:21.640][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 10:40:21.648][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:21.650][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 10:40:21.652][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 10:40:21.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.659][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 10:40:21.661][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 10:40:21.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.667][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 10:40:21.669][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 10:40:21.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.675][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 10:40:21.677][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 10:40:21.679][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 10:40:21.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.684][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 10:40:21.685][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 10:40:21.687][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 10:40:21.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.692][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 10:40:21.694][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 10:40:21.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.698][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 10:40:21.699][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 10:40:21.700][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 10:40:21.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.704][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 10:40:21.706][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 10:40:21.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.710][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 10:40:21.711][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 10:40:21.712][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 10:40:21.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.716][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:21.718][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 10:40:21.719][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 10:40:21.720][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 10:40:21.721][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 10:40:21.722][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 10:40:21.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.726][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 10:40:21.728][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 10:40:21.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.732][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 10:40:21.733][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 10:40:21.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.737][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 10:40:21.739][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 10:40:21.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.743][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 10:40:21.744][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 10:40:21.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.748][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 10:40:21.749][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 10:40:21.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.754][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:21.755][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 10:40:21.764][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-01-13 10:40:21.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.770][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 10:40:21.771][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 10:40:21.773][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 10:40:21.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.779][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:40:21.782][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.784][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-13 10:40:21.786][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.788][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:21.789][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.791][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.793][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.794][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.795][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:21.797][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:21.798][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.800][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 10:40:21.801][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:21.803][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.805][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.807][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:21.807][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:21.807][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:21.807][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:21.807][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:21.809][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:21.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:21.812][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:21.813][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:21.814][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:21.815][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:21.816][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.817][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.819][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:21.820][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:21.821][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.822][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.824][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 10:40:21.828][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.829][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:21.839][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.840][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:21.842][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.844][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.846][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.848][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.850][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:21.851][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:21.853][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.855][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 10:40:21.857][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:21.859][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.861][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.863][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:21.863][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:21.863][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:21.863][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:21.863][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:21.865][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:21.866][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:21.867][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:21.868][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:21.870][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:21.872][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:21.874][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.877][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.879][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:21.881][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:21.883][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.885][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.887][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:40:21.890][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.892][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-13 10:40:21.894][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.896][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:21.898][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.900][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.902][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.904][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.906][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:21.908][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:21.909][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.911][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 10:40:21.912][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:21.914][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.916][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.918][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.920][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:21.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:21.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:21.924][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:21.926][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:21.928][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:21.930][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.932][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.933][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:21.935][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:21.937][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.939][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.941][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 10:40:21.943][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.944][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:21.945][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.947][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:21.948][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.950][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.952][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.953][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.955][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:21.957][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:21.959][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.961][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 10:40:21.963][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:21.965][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.966][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:21.967][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.969][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:21.971][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:21.972][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:21.974][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:21.976][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:21.978][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:21.980][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:21.981][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.982][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:21.984][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:21.986][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:21.988][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:21.990][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:21.992][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:21.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:21.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:21.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:21.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.018][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[2022-01-13 10:40:22.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.033][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[2022-01-13 10:40:22.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.048][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[2022-01-13 10:40:22.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.055][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[2022-01-13 10:40:22.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.079][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[2022-01-13 10:40:22.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.135][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 10:40:22.137][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 10:40:22.139][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 10:40:22.141][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 10:40:22.143][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 10:40:22.146][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:40:22.148][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:22.151][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:22.154][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 10:40:22.156][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:40:22.158][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:40:22.160][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 10:40:22.163][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:22.165][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:22.168][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 10:40:22.171][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:40:22.173][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 10:40:22.175][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 10:40:22.177][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 10:40:22.180][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 10:40:22.182][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 10:40:22.185][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 10:40:22.187][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 10:40:22.189][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 10:40:22.191][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 10:40:22.194][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 10:40:22.196][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 10:40:22.198][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 10:40:22.199][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 10:40:22.201][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 10:40:22.203][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 10:40:22.204][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 10:40:22.207][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 10:40:22.209][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 10:40:22.212][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 10:40:22.215][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 10:40:22.217][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 10:40:22.218][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 10:40:22.221][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 10:40:22.223][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 10:40:22.225][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 10:40:22.228][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 10:40:22.231][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 10:40:22.233][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 10:40:22.236][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 10:40:22.239][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 10:40:22.242][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 10:40:22.244][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 10:40:22.246][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 10:40:22.248][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 10:40:22.250][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 10:40:22.253][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 10:40:22.256][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 10:40:22.259][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 10:40:22.261][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 10:40:22.264][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 10:40:22.266][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 10:40:22.269][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 10:40:22.272][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 10:40:22.275][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 10:40:22.277][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 10:40:22.279][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 10:40:22.282][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 10:40:22.284][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 10:40:22.287][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 10:40:22.289][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 10:40:22.291][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 10:40:22.293][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 10:40:22.296][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 10:40:22.299][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 10:40:22.302][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 10:40:22.305][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 10:40:22.309][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 10:40:22.312][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 10:40:22.314][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 10:40:22.317][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 10:40:22.320][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 10:40:22.329][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 10:40:22.332][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 10:40:22.335][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 10:40:22.338][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 10:40:22.340][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 10:40:22.342][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 10:40:22.345][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 10:40:22.348][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:40:22.351][biodb$getConfig()$set] Set key use.cache.for.local.db to TRUE.
biodb.DEBUG[2022-01-13 10:40:22.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:22.360][biodb$getConfig()$set] Set key persistent.cache.impl to "bioc".
biodb.DEBUG[2022-01-13 10:40:22.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:22.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:22.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:22.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:22.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 10:40:22.371][biodb$getPersistentCache()$erase] Erasing cache "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb".
biodb.DEBUG[2022-01-13 10:40:22.380][super$initialize] Initialize connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:40:22.382][biodb$getFactory()$createConn] Creating new connector comp.csv.file for database class comp.csv.file , with base URL "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.INFO [2022-01-13 10:40:22.384][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:22.386][biodb::testThat] Running test function  test_cacheFiles  (" We can list cache files. ").
biodb.INFO [2022-01-13 10:40:22.388][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:22.390][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:22.421][private$initDb] Loading file database "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-13 10:40:22.425][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-13 10:40:22.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:22.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:22.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:22.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:22.436][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:22.439][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-13 10:40:22.440][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:22.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:22.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:22.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:22.448][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:22.448][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:22.450][self$setField] Set field monoisotopic.mass to column(s) monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:22.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:22.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:22.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:22.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:22.460][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:22.460][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:22.460][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:22.463][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2022-01-13 10:40:22.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:22.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:22.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:22.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:22.473][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:22.473][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:22.473][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:22.473][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:22.475][self$setField] Set field kegg.compound.id to column(s) kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:22.477][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:22.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:22.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:22.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:22.482][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:22.482][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:22.482][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:22.482][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:22.482][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:22.484][self$setField] Set field name to column(s) name.
biodb.TRACE[2022-01-13 10:40:22.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:22.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:22.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:22.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:22.492][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:22.492][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:22.492][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:22.492][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:22.492][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:22.492][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:22.495][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2022-01-13 10:40:22.497][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:22.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:22.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:22.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:22.503][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:22.503][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:22.503][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:22.503][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:22.503][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:22.503][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:22.503][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:22.505][self$setField] Set field description to column(s) description.
biodb.TRACE[2022-01-13 10:40:22.507][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:22.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:22.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:22.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:22.513][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:22.513][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:22.513][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:22.513][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:22.513][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:22.513][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:22.513][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:22.513][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:22.526][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-13 10:40:22.527][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-13 10:40:22.530][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-13 10:40:22.531][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-13 10:40:22.533][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 10:40:22.535][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:40:22.537][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-13 10:40:22.538][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:22.539][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:22.540][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-13 10:40:22.552][private$doGetEntryContentFromDb] Content of first entry: accession	formula	monoisotopic.mass	molecular.mass	kegg.compound.id	name	smiles	description
1018	C2H8AsNO3	168.97201	169.012	C07279	2-Aminoethylarsonate	NCC[As](O)(O)=O	
biodb.INFO [2022-01-13 10:40:22.563][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108" for "comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.DEBUG[2022-01-13 10:40:23.922][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 10:40:23.939][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-13 10:40:23.941][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-13 10:40:23.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:23.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:23.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:23.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:23.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:23.959][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:23.959][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:23.959][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:23.959][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:23.959][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:23.959][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:23.959][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:23.959][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:23.961][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:23.961][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:23.961][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:23.961][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:23.961][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:23.961][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:23.961][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:23.961][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:23.963][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:23.963][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:23.963][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:23.963][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:23.963][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:23.963][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:23.963][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:23.963][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:23.966][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:23.966][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:23.966][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:23.966][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:23.966][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:23.966][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:23.966][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:23.966][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:23.968][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:23.968][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:23.968][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:23.968][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:23.968][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:23.968][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:23.968][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:23.968][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:23.970][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:23.970][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:23.970][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:23.970][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:23.970][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:23.970][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:23.970][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:23.970][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:23.972][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:23.972][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:23.972][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:23.972][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:23.972][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:23.972][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:23.972][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:23.972][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-13 10:40:23.974][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:23.974][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:23.974][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:23.974][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:23.974][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-13 10:40:23.974][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-13 10:40:23.974][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-13 10:40:23.974][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.TRACE[2022-01-13 10:40:23.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:23.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:23.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:23.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:23.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:23.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:23.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:23.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:23.998][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:24.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:24.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.005][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:24.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:24.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.064][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.070][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:24.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:24.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:24.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:24.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.103][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:24.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:24.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.109][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:24.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:24.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.125][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:24.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:24.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.133][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:24.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:24.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.148][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.156][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:24.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:24.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:24.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:24.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:24.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:24.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.231][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:24.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:24.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.236][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:24.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:24.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.301][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.307][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.320][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:24.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:24.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.326][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:24.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:24.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.340][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:24.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:24.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.345][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:24.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:24.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.356][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:24.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:24.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.361][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:24.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:24.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.374][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.381][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.396][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:24.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:24.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:24.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:24.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:24.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:24.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.466][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:24.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:24.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.472][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:24.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:24.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:24.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:24.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.539][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.546][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:24.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:24.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:24.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:24.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:24.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.579][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:24.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:24.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.588][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:24.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:24.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.599][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:24.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:24.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.607][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:24.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:24.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.621][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.626][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.642][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:24.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:24.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:24.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:24.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:24.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:24.742][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.DEBUG[2022-01-13 10:40:25.288][cache$listFiles] Extracting accession number from file names associated with comp.csv.file-cfc735974ea993fdc17554cac406c108 using pattern ^(.*)\.tsv$
biodb.DEBUG[2022-01-13 10:40:25.289][cache$listFiles] files = 1018.tsv, 1390.tsv, 1456.tsv
biodb.INFO [2022-01-13 10:40:25.294][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:25.295][biodb::testThat] Running test function  test_deleteFilesForWrongCacheId  (" We got a warning if we try to delete files for a cache.id that has no associated folder. ").
biodb.INFO [2022-01-13 10:40:25.297][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:25.298][biodb::testThat] 
biodb.WARN [2022-01-13 10:40:25.302][self$getFolderPath] No cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/foo-1234567890abcdef01234" exists for "foo-1234567890abcdef01234".
biodb.INFO [2022-01-13 10:40:25.306][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:25.308][biodb::testThat] Running test function  test_filesExistForConn  (" We detect if cache files exist for a connector ").
biodb.INFO [2022-01-13 10:40:25.310][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:25.312][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:25.576][cache$deleteAllFiles] Erasing all files in "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.INFO [2022-01-13 10:40:25.707][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:25.708][biodb::testThat] Running test function  test_noFilesExist  (" No cache files exist for unknown cache ID. ").
biodb.INFO [2022-01-13 10:40:25.710][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:25.711][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:25.719][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:25.720][biodb::testThat] Running test function  test_usedCacheIds  (" We can a list of used cache IDs ").
biodb.INFO [2022-01-13 10:40:25.722][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:25.724][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:40:25.728][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-13 10:40:25.729][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-13 10:40:25.733][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-13 10:40:25.735][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-13 10:40:25.737][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 10:40:25.740][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:40:25.742][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-13 10:40:25.744][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:25.746][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:25.748][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-13 10:40:25.762][private$doGetEntryContentFromDb] Content of first entry: accession	formula	monoisotopic.mass	molecular.mass	kegg.compound.id	name	smiles	description
1018	C2H8AsNO3	168.97201	169.012	C07279	2-Aminoethylarsonate	NCC[As](O)(O)=O	
biodb.INFO [2022-01-13 10:40:25.772][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108" for "comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.DEBUG[2022-01-13 10:40:27.064][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 10:40:27.079][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-13 10:40:27.081][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-13 10:40:27.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:27.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:27.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:27.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:27.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:27.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.118][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:27.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:27.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.123][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:27.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:27.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.178][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.183][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.193][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:27.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:27.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.198][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:27.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:27.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.207][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:27.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:27.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.212][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:27.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:27.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.221][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:27.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:27.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.226][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:27.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:27.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.236][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.241][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.250][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:27.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:27.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:27.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:27.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:27.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:27.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.325][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:27.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:27.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.334][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:27.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:27.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.386][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.393][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.407][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:27.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:27.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:27.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:27.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.427][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:27.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:27.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.434][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:27.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:27.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.447][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:27.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:27.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.456][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:27.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:27.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.468][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.473][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.483][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:27.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:27.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:27.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:27.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:27.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:27.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.539][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:27.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:27.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.544][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:27.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:27.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:27.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:27.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.598][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.606][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:27.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.618][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:27.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:27.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:27.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:27.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.641][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:27.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:27.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.649][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:27.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:27.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.664][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:27.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:27.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.669][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:27.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:27.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.681][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.688][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.703][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:27.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:27.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:27.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:27.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:27.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:27.808][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-13 10:40:27.816][cache$deleteAllFiles] Erasing all files in "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.INFO [2022-01-13 10:40:27.824][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:27.826][biodb::testThat] Running test function  test_deleteAllFiles  (" We can delete all cache files for a connector ").
biodb.INFO [2022-01-13 10:40:27.828][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:27.830][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:40:27.835][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-13 10:40:27.837][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-13 10:40:27.840][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-13 10:40:27.843][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-13 10:40:27.845][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 10:40:27.847][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:40:27.849][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-13 10:40:27.851][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:27.853][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:27.855][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-13 10:40:27.869][private$doGetEntryContentFromDb] Content of first entry: accession	formula	monoisotopic.mass	molecular.mass	kegg.compound.id	name	smiles	description
1018	C2H8AsNO3	168.97201	169.012	C07279	2-Aminoethylarsonate	NCC[As](O)(O)=O	
biodb.INFO [2022-01-13 10:40:27.882][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108" for "comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.DEBUG[2022-01-13 10:40:29.307][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 10:40:29.326][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-13 10:40:29.329][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-13 10:40:29.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:29.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:29.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:29.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:29.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:29.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.368][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:29.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:29.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.374][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:29.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:29.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.429][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.436][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:29.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:29.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:29.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:29.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.464][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:29.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:29.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.472][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:29.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:29.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.487][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:29.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:29.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.494][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:29.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:29.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.509][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.517][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.534][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:29.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:29.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:29.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:29.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:29.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:29.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.601][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:29.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:29.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.606][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:29.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:29.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.665][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.672][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.685][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:29.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:29.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:29.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:29.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.712][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:29.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:29.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.719][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:29.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:29.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.734][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:29.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:29.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.743][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:29.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:29.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.758][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.765][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.779][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:29.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:29.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:29.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:29.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:29.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:29.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:29.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:29.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.848][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:29.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:29.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.854][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:29.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:29.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:29.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:29.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.912][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.920][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:29.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.933][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:29.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:29.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:29.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:29.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.955][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:29.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:29.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.961][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:29.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:29.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.975][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:29.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:29.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.982][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:29.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:29.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:29.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:29.997][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:29.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:30.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.004][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:30.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:30.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.018][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:30.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:30.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:30.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:30.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:30.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:30.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:30.127][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-13 10:40:30.454][cache$deleteAllFiles] Erasing all files in "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.DEBUG[2022-01-13 10:40:30.462][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-13 10:40:30.463][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-13 10:40:30.466][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-13 10:40:30.468][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-13 10:40:30.470][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 10:40:30.473][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:40:30.475][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-13 10:40:30.477][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:30.479][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:30.481][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-13 10:40:30.503][private$doGetEntryContentFromDb] Content of first entry: accession	formula	monoisotopic.mass	molecular.mass	kegg.compound.id	name	smiles	description
1018	C2H8AsNO3	168.97201	169.012	C07279	2-Aminoethylarsonate	NCC[As](O)(O)=O	
biodb.INFO [2022-01-13 10:40:30.513][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108" for "comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.DEBUG[2022-01-13 10:40:32.309][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 10:40:32.326][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-13 10:40:32.328][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-13 10:40:32.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:32.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:32.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:32.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:32.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:32.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.367][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:32.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:32.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.375][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:32.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:32.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.439][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.447][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.463][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:32.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:32.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.470][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:32.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:32.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:32.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:32.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.492][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:32.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:32.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.507][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:32.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:32.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.516][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:32.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:32.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.531][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.538][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.552][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:32.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:32.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:32.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:32.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:32.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:32.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.628][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:32.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:32.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.636][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:32.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:32.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.703][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.711][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.726][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:32.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:32.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.735][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:32.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:32.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:32.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:32.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.759][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:32.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:32.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.775][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:32.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:32.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.780][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:32.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:32.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.793][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.800][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.812][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:32.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:32.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:32.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:32.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:32.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:32.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:32.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:32.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:32.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.884][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:32.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:32.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.891][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:32.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:32.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:40:32.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:40:32.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.952][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.960][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:40:32.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.978][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:32.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:32.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:32.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:40:32.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:40:32.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:32.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.003][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:33.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:33.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.012][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:40:33.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:40:33.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.028][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:33.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:33.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.037][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:40:33.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:40:33.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.052][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:33.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:33.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.060][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:33.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:33.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.075][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:33.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-13 10:40:33.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:33.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:33.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:33.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:33.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:33.180][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-13 10:40:33.525][cache$deleteAllFiles] Erasing all files in "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/comp.csv.file-cfc735974ea993fdc17554cac406c108".
biodb.INFO [2022-01-13 10:40:33.533][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2022-01-13 10:40:33.535][self$deleteConn] Connector "comp.csv.file" deleted.
biodb.DEBUG[2022-01-13 10:40:33.537][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-13 10:40:33.538][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:33.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:33.542][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 10:40:33.565][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:40:33.567][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 10:40:33.575][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:33.577][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 10:40:33.578][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 10:40:33.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.585][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 10:40:33.587][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 10:40:33.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.594][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 10:40:33.597][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 10:40:33.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.604][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 10:40:33.605][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 10:40:33.607][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 10:40:33.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.614][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 10:40:33.616][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 10:40:33.617][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 10:40:33.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.622][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[2022-01-13 10:40:33.624][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 10:40:33.626][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 10:40:33.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.633][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 10:40:33.635][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 10:40:33.637][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 10:40:33.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.643][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 10:40:33.644][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 10:40:33.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.649][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 10:40:33.651][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 10:40:33.652][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 10:40:33.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.658][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:33.660][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 10:40:33.662][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 10:40:33.664][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 10:40:33.666][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 10:40:33.668][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 10:40:33.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.673][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 10:40:33.675][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 10:40:33.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.682][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 10:40:33.684][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 10:40:33.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.691][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 10:40:33.692][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 10:40:33.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.697][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 10:40:33.699][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 10:40:33.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.706][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 10:40:33.708][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 10:40:33.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.714][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:40:33.716][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 10:40:33.727][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-01-13 10:40:33.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.733][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 10:40:33.735][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 10:40:33.737][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 10:40:33.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.744][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:40:33.748][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.750][self$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[2022-01-13 10:40:33.751][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.754][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:33.756][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.757][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.759][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.761][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.763][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:33.765][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:33.766][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.768][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 10:40:33.769][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:33.770][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.771][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.772][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:33.772][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:33.772][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:33.772][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:33.772][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:33.774][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:33.775][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:33.776][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:33.777][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:33.778][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:33.779][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:33.780][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.782][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.784][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:33.785][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:33.786][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.788][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.789][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 10:40:33.793][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.794][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:33.796][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.798][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:33.800][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.803][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.804][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.806][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.808][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:33.810][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:33.811][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.813][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 10:40:33.815][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:33.817][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.818][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.820][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:40:33.820][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:40:33.820][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:40:33.820][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:40:33.820][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:40:33.822][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:33.824][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:33.826][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:33.828][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:33.829][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:33.831][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:33.833][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.835][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.836][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:33.838][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:33.840][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.842][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.844][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:40:33.847][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.849][self$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[2022-01-13 10:40:33.850][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.852][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:33.854][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.856][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.857][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.859][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.861][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:40:33.863][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:33.865][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.867][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 10:40:33.868][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:33.870][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.871][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.872][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.874][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:33.876][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:33.877][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:33.879][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:33.881][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:33.883][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:33.885][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.887][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.889][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:33.891][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:33.892][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.894][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.897][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 10:40:33.900][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.902][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:40:33.904][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.906][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:40:33.908][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.910][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.911][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.914][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.916][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:40:33.918][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:40:33.920][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.922][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 10:40:33.924][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:40:33.926][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.928][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:40:33.930][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.933][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:40:33.935][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:33.937][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:33.939][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:40:33.941][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:40:33.943][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:40:33.944][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:40:33.946][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.948][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:40:33.950][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:40:33.951][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:40:33.953][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:40:33.956][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:40:33.958][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:33.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:33.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:33.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:33.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:33.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:33.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.983][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".
biodb.DEBUG[2022-01-13 10:40:33.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:33.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:33.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:33.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:33.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:33.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:33.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:33.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.000][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[2022-01-13 10:40:34.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:34.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:34.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:34.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.033][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[2022-01-13 10:40:34.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:34.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.048][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[2022-01-13 10:40:34.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.058][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[2022-01-13 10:40:34.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.065][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[2022-01-13 10:40:34.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:34.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.079][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[2022-01-13 10:40:34.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:34.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:40:34.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:34.097][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 10:40:34.100][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 10:40:34.103][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 10:40:34.106][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 10:40:34.109][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 10:40:34.112][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:40:34.114][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:34.117][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:34.120][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 10:40:34.123][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:40:34.125][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:40:34.128][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 10:40:34.131][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 10:40:34.134][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 10:40:34.137][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 10:40:34.140][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:40:34.143][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 10:40:34.145][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 10:40:34.148][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 10:40:34.151][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 10:40:34.153][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 10:40:34.156][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 10:40:34.159][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 10:40:34.162][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 10:40:34.165][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 10:40:34.168][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 10:40:34.171][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 10:40:34.174][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 10:40:34.177][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 10:40:34.180][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 10:40:34.183][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 10:40:34.186][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 10:40:34.188][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 10:40:34.191][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 10:40:34.194][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 10:40:34.197][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 10:40:34.200][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 10:40:34.203][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 10:40:34.206][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 10:40:34.210][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 10:40:34.213][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 10:40:34.216][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 10:40:34.228][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 10:40:34.231][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 10:40:34.234][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 10:40:34.236][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 10:40:34.239][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 10:40:34.241][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 10:40:34.245][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 10:40:34.248][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 10:40:34.250][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 10:40:34.253][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 10:40:34.256][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 10:40:34.259][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 10:40:34.261][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 10:40:34.264][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 10:40:34.266][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 10:40:34.269][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 10:40:34.272][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 10:40:34.275][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 10:40:34.278][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 10:40:34.281][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 10:40:34.284][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 10:40:34.286][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 10:40:34.289][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 10:40:34.292][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 10:40:34.294][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 10:40:34.297][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 10:40:34.299][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 10:40:34.302][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 10:40:34.304][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 10:40:34.306][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 10:40:34.309][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 10:40:34.312][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 10:40:34.314][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 10:40:34.316][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 10:40:34.318][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 10:40:34.320][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 10:40:34.322][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 10:40:34.325][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 10:40:34.328][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 10:40:34.331][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 10:40:34.334][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 10:40:34.337][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 10:40:34.339][initialize] This is biodb version 1.2.2.
biodb.INFO [2022-01-13 10:40:34.341][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:34.343][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:34.345][biodb::testContext] Test context - Test BiodbMain instance.
biodb.INFO [2022-01-13 10:40:34.347][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:40:34.348][biodb::testContext] 
biodb.INFO [2022-01-13 10:40:34.351][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:34.353][biodb::testThat] Running test function  test.convertEntryIdFieldToDbClass  (" convertEntryIdFieldToDbClass() works correctly. ").
biodb.INFO [2022-01-13 10:40:34.355][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:34.357][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:34.373][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:34.374][biodb::testThat] Running test function  test.collapseRows  (" collapseRows() works correctly. ").
biodb.INFO [2022-01-13 10:40:34.375][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:34.376][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:34.465][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:34.466][biodb::testThat] Running test function  test.entriesToDataframe  (" entriesToDataframe() works correctly. ").
biodb.INFO [2022-01-13 10:40:34.467][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:34.468][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:40:34.476][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:40:34.478][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2022-01-13 10:40:34.482][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-13 10:40:34.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:34.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:34.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:34.491][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:34.494][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-13 10:40:34.496][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:34.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:34.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:34.504][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:34.504][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:34.507][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2022-01-13 10:40:34.509][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:34.516][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:34.516][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:34.516][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-13 10:40:34.522][private$loadEntries] Creating entries from ids [3]: "A1, A2, A3".
biodb.DEBUG[2022-01-13 10:40:34.525][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 3 id(s)...
biodb.DEBUG[2022-01-13 10:40:34.528][conn$getEntryContent] 3 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2022-01-13 10:40:34.531][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:34.532][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:34.534][private$doGetEntryContentFromDb] Entry id: A1, A2, A3
biodb.DEBUG[2022-01-13 10:40:34.543][private$doGetEntryContentFromDb] Content of first entry: accession	formula	msprecmz
A1	C3H10N2	80
biodb.DEBUG[2022-01-13 10:40:34.562][self$createEntryFromContent] Creating Mass spectra CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-13 10:40:34.564][self$createEntryFromContent] Parsing 3 Mass spectra CSV File entries.
biodb.DEBUG[2022-01-13 10:40:34.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:34.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:34.580][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:34.580][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:34.580][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-13 10:40:34.582][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:34.582][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:34.582][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-13 10:40:34.584][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:34.584][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:34.584][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2022-01-13 10:40:34.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:34.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:34.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:34.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:34.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.607][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:34.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:34.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.614][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:34.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:34.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.629][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.634][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.644][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.651][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.659][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.667][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.675][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:34.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:34.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.682][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:34.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:34.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.690][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.698][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:34.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:34.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.706][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:34.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:34.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.714][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:34.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:34.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.724][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.731][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.738][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:34.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:34.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.745][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:34.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:34.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.751][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:34.753][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-13 10:40:34.755][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-13 10:40:34.756][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-13 10:40:34.758][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:34.760][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:34.762][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.764][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.766][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:34.768][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:34.770][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.772][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.773][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.775][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.777][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.779][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.781][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:34.782][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:34.783][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2022-01-13 10:40:34.784][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2022-01-13 10:40:34.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:34.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:34.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:34.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:34.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:34.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:34.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.807][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.814][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:34.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:34.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.821][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:34.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:34.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:34.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:34.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.835][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:34.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:34.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:34.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:34.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:34.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:34.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:34.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:34.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:34.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:34.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:34.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:34.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:34.873][FUN] Functions in observer BiodbConfig: [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[2022-01-13 10:40:34.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:34.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:34.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:34.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:34.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.901][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:34.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:34.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.909][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:34.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:34.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.923][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.931][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:34.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.948][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.963][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.971][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.979][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:34.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.987][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:34.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:34.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:34.994][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:34.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:34.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:34.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.000][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.009][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:35.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:35.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.017][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:35.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:35.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.023][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:35.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:35.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.050][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.057][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.065][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:35.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:35.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.071][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:35.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:35.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.077][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:35.078][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-13 10:40:35.079][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-13 10:40:35.081][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-13 10:40:35.083][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.085][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.087][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.089][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.091][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.092][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.094][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.096][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.098][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.100][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.102][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.103][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.105][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:35.107][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:35.108][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2022-01-13 10:40:35.110][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2022-01-13 10:40:35.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:35.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:35.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:35.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:35.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:35.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:35.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.131][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.139][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.147][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.161][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:35.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:35.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:35.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:35.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:35.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:35.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.241][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.255][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.263][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.277][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.285][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.292][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.297][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.306][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:35.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:35.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.313][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:35.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:35.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.318][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.326][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:35.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:35.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.335][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:35.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:35.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.343][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:35.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:35.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.354][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.362][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:35.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.369][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:35.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:35.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.377][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:35.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:35.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.384][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:35.386][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-13 10:40:35.388][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-13 10:40:35.390][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-13 10:40:35.392][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.394][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.396][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.397][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.399][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.402][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.403][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.405][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.406][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.408][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.410][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.412][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.414][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:35.416][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:35.417][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2022-01-13 10:40:35.419][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2022-01-13 10:40:35.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:35.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:35.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:35.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:35.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:35.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:35.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.445][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:35.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.453][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.461][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.474][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:35.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:35.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:35.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:35.581][self$createEntryFromContent] Accession numbers: A1, A2, A3.
biodb.DEBUG[2022-01-13 10:40:35.633][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 10:40:35.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:35.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:35.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:35.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:35.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:35.669][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.679][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.733][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.734][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:35.736][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:35.738][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:35.740][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.741][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.743][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.744][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.746][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.748][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.750][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.751][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.752][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.754][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.774][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.775][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.776][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.777][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.778][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.780][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-13 10:40:35.781][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.785][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.795][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C3H10N2].
biodb.DEBUG[2022-01-13 10:40:35.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:35.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:35.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:35.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:35.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:35.802][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.811][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.812][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:35.813][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:35.815][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:35.816][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.818][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.820][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.822][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.824][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.825][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.826][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.828][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.829][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.830][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.831][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.832][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.833][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.835][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.836][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.838][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-13 10:40:35.840][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.848][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.856][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.864][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H12O6].
biodb.DEBUG[2022-01-13 10:40:35.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:35.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:35.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:35.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:35.872][FUN] Functions in observer BiodbConfig: [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[2022-01-13 10:40:35.874][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.879][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.884][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.885][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:35.886][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:35.888][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:35.890][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.892][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.893][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.895][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.897][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.899][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.901][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.903][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.905][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.907][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.909][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:35.911][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.913][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.915][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.917][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.919][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-13 10:40:35.921][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.936][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:35.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:35.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:35.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:35.944][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H8O7].
biodb.DEBUG[2022-01-13 10:40:35.946][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 10:40:35.947][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2022-01-13 10:40:35.953][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 10:40:35.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:35.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:36.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:36.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:36.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:36.006][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.022][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.023][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:36.025][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:36.027][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:36.028][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.030][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.032][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.034][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.036][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.038][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.040][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.042][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.043][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.045][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.047][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.049][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.050][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.051][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.052][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.054][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-13 10:40:36.055][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.060][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.068][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.077][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C3H10N2].
biodb.DEBUG[2022-01-13 10:40:36.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:36.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:36.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:36.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:36.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:36.088][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.096][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.104][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.106][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:36.108][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:36.110][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:36.112][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.114][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.116][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.118][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.120][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.121][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.123][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.125][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.127][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.129][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.131][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.133][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.135][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.137][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.139][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.141][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-13 10:40:36.142][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.149][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.158][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.163][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H12O6].
biodb.DEBUG[2022-01-13 10:40:36.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:36.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:36.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:36.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:36.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:36.173][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.178][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.185][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.186][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:36.188][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:36.190][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:36.191][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.192][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.194][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.196][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.198][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.199][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.202][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.203][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.205][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.207][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.209][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-13 10:40:36.211][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.213][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.215][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.217][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.219][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-13 10:40:36.221][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.230][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.239][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.247][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H8O7].
biodb.DEBUG[2022-01-13 10:40:36.249][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 10:40:36.250][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2022-01-13 10:40:36.253][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 10:40:36.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:36.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:36.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:36.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:36.262][FUN] Functions in observer BiodbConfig: [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[2022-01-13 10:40:36.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.286][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.294][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.296][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:36.298][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:36.300][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:36.302][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.304][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.306][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.308][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.309][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.311][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.313][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.315][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.317][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.319][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.321][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.323][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.325][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.327][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.329][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.330][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.331][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.332][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.333][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.334][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.336][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.337][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.338][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.339][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.340][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.341][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.343][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.344][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2022-01-13 10:40:36.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.360][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.366][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.376][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.384][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A1, C3H10N2].
biodb.DEBUG[2022-01-13 10:40:36.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:36.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:36.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:36.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:36.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:36.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.406][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.413][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.418][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.419][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:36.420][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:36.421][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:36.422][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.424][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.425][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.426][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.427][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.428][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.431][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.432][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.434][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.436][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.438][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.440][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.442][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.444][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.446][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.447][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.449][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.451][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.453][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.455][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.457][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.459][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.461][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.462][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.463][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.464][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.466][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.467][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2022-01-13 10:40:36.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.483][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.489][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.501][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A2, C6H12O6].
biodb.DEBUG[2022-01-13 10:40:36.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:36.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:36.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:36.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:36.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:36.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.525][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.532][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.537][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.539][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:36.540][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:36.542][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:36.543][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.545][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.546][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.547][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.549][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.551][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.553][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.555][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.556][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.558][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.559][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.561][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.562][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.564][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.566][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.568][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.570][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.572][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.574][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-13 10:40:36.576][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.577][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.578][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.579][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.580][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.582][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.583][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.584][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.585][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2022-01-13 10:40:36.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.601][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.608][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.616][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.625][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A3, C6H8O7].
biodb.DEBUG[2022-01-13 10:40:36.627][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 10:40:36.629][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2022-01-13 10:40:36.634][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 10:40:36.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:36.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:36.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:36.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:36.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:36.642][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.647][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.652][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.653][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:36.654][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:36.655][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:36.656][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.657][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.659][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.660][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.661][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.662][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.663][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.665][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.666][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.668][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.670][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.672][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2022-01-13 10:40:36.674][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.682][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.689][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.696][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [80].
biodb.DEBUG[2022-01-13 10:40:36.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:36.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:36.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:36.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:36.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:36.706][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.714][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.722][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.723][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:36.725][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:36.727][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:36.729][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.730][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.732][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.734][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.736][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.738][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.740][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.742][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.743][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.745][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.746][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.748][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2022-01-13 10:40:36.749][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.754][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.760][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.768][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [90].
biodb.DEBUG[2022-01-13 10:40:36.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:36.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:36.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:36.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:36.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:36.778][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.783][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.788][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.789][private$selectFields] 
biodb.TRACE[2022-01-13 10:40:36.790][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 10:40:36.791][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 10:40:36.793][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.794][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.795][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.796][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.797][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.799][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.801][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-13 10:40:36.803][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.805][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.807][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.809][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.812][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2022-01-13 10:40:36.814][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.823][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.828][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.836][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [100;110].
biodb.DEBUG[2022-01-13 10:40:36.837][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 10:40:36.839][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2022-01-13 10:40:36.842][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2022-01-13 10:40:36.844][biodb::testThat] 
biodb.INFO [2022-01-13 10:40:36.846][biodb::testThat] Running test function  test.entriesToDataframe.listOfListInput  (" entriesToDataframe() handles list of list in input. ").
biodb.INFO [2022-01-13 10:40:36.848][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:40:36.850][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:40:36.858][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:40:36.861][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2022-01-13 10:40:36.863][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-13 10:40:36.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:36.874][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:36.877][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-13 10:40:36.880][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:36.888][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:36.888][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:36.890][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2022-01-13 10:40:36.892][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:36.898][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:36.898][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:36.898][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-13 10:40:36.902][private$loadEntries] Creating entries from ids [3]: "A1, A2, A3".
biodb.DEBUG[2022-01-13 10:40:36.904][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 3 id(s)...
biodb.DEBUG[2022-01-13 10:40:36.907][conn$getEntryContent] 3 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2022-01-13 10:40:36.909][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 10:40:36.911][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 10:40:36.913][private$doGetEntryContentFromDb] Entry id: A1, A2, A3
biodb.DEBUG[2022-01-13 10:40:36.923][private$doGetEntryContentFromDb] Content of first entry: accession	formula	msprecmz
A1	C3H10N2	80
biodb.DEBUG[2022-01-13 10:40:36.942][self$createEntryFromContent] Creating Mass spectra CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-13 10:40:36.944][self$createEntryFromContent] Parsing 3 Mass spectra CSV File entries.
biodb.DEBUG[2022-01-13 10:40:36.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:36.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:36.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:36.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:36.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:36.954][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:36.954][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:36.954][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-13 10:40:36.956][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:36.956][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:36.956][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-13 10:40:36.957][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-13 10:40:36.957][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-13 10:40:36.957][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2022-01-13 10:40:36.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:36.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:36.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.973][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.978][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:36.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:36.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.987][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:36.992][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:36.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:36.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.002][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.010][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.027][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.035][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.043][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.051][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.058][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.063][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:37.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:37.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.070][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:37.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:37.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.078][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:37.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:37.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.088][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.095][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.104][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.111][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.118][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:37.120][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-13 10:40:37.121][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-13 10:40:37.123][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-13 10:40:37.125][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.127][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.129][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.131][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.133][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:37.135][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:37.137][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.139][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.141][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.143][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.145][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.147][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.148][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:37.150][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:37.152][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2022-01-13 10:40:37.154][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2022-01-13 10:40:37.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:37.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:37.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.178][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.186][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.193][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.207][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:37.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:37.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:37.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:37.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:37.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:37.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.273][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:37.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:37.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.282][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:37.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:37.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.298][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.305][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.317][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.324][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.333][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.342][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.350][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.356][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.363][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.371][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:37.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:37.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.379][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:37.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:37.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.387][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:37.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:37.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.396][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.401][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.408][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.416][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.424][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:37.425][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-13 10:40:37.427][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-13 10:40:37.428][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-13 10:40:37.430][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.432][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.433][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.435][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.436][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:37.438][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:37.439][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.441][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.442][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.443][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.444][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.446][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.447][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:37.448][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:37.449][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2022-01-13 10:40:37.450][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2022-01-13 10:40:37.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:37.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:37.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.473][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.481][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.488][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.499][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:37.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:37.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:37.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:37.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:37.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:37.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.566][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:37.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:37.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.574][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:37.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:37.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.589][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.595][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.609][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.615][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.623][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.631][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.638][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.646][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.651][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.656][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:37.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:37.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.660][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:37.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:37.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.665][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-13 10:40:37.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-13 10:40:37.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.673][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.681][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.687][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.694][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.699][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:37.700][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-13 10:40:37.701][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-13 10:40:37.703][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-13 10:40:37.705][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.708][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.710][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.711][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.712][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:40:37.714][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:40:37.716][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.718][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.720][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.721][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.723][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.724][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.726][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:37.728][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:37.730][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2022-01-13 10:40:37.733][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2022-01-13 10:40:37.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-13 10:40:37.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:37.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-13 10:40:37.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.768][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-13 10:40:37.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.776][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.785][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.802][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-13 10:40:37.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:40:37.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:40:37.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:40:37.894][self$createEntryFromContent] Accession numbers: A1, A2, A3.
biodb.DEBUG[2022-01-13 10:40:37.896][biodb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 10:40:37.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:37.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:37.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:37.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:37.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:37.910][private$entriesToListOfDataframes] Converted 0 entry/ies to data frame(s).
biodb.TRACE[2022-01-13 10:40:37.912][private$entriesToListOfDataframes] Entry converted to data frame: NULL.
biodb.DEBUG[2022-01-13 10:40:37.914][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 10:40:37.916][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2022-01-13 10:40:37.920][biodb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 10:40:37.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:37.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:37.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:37.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:37.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:37.933][private$entriesToListOfDataframes] Converted 0 entry/ies to data frame(s).
biodb.TRACE[2022-01-13 10:40:37.934][private$entriesToListOfDataframes] Entry converted to data frame: NULL.
biodb.DEBUG[2022-01-13 10:40:37.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:37.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:37.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:37.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:37.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:40:37.942][private$entriesToListOfDataframes] Converted 0 entry/ies to data frame(s).
biodb.TRACE[2022-01-13 10:40:37.943][private$entriesToListOfDataframes] Entry converted to data frame: NULL.
biodb.DEBUG[2022-01-13 10:40:37.944][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 10:40:37.945][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2022-01-13 10:40:37.948][biodb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 10:40:37.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:40:37.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:40:37.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:40:37.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:40:37.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:40:37.957][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.961][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:40:37.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.967][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:40:37.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.974][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:40:37.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:40:37.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:40:37.980][private$selectFields] Fields none
biodb.TRACE[2022-01-13 10:40:37.982][private$selectFields] 
biodb.TRACE[2022-01-13