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This page was generated on 2024-06-11 14:41 -0400 (Tue, 11 Jun 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4757
palomino3Windows Server 2022 Datacenterx644.4.0 (2024-04-24 ucrt) -- "Puppy Cup" 4491
lconwaymacOS 12.7.1 Montereyx86_644.4.0 (2024-04-24) -- "Puppy Cup" 4522
kjohnson3macOS 13.6.5 Venturaarm644.4.0 (2024-04-24) -- "Puppy Cup" 4468
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 200/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.10.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-06-09 14:00 -0400 (Sun, 09 Jun 2024)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_19
git_last_commit: fad38a4
git_last_commit_date: 2024-04-30 11:37:31 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.6.5 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for biodbChebi on lconway

To the developers/maintainers of the biodbChebi package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: biodbChebi
Version: 1.10.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.10.0.tar.gz
StartedAt: 2024-06-09 19:01:11 -0400 (Sun, 09 Jun 2024)
EndedAt: 2024-06-09 19:02:38 -0400 (Sun, 09 Jun 2024)
EllapsedTime: 86.5 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/biodbChebi.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.10.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking 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 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 ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** using staged installation
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.4.0 (2024-04-24) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2024-06-09 19:02:09.111][biodb::testContext]
biodb.INFO [2024-06-09 19:02:09.115][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-09 19:02:09.116][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-06-09 19:02:09.117][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-09 19:02:09.118][biodb::testContext]
biodb.INFO [2024-06-09 19:02:09.125][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-09 19:02:09.127][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-09 19:02:09.137][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:09.138][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-09 19:02:09.140][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-09 19:02:09.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.145][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-09 19:02:09.167][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-09 19:02:09.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.171][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-09 19:02:09.173][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-09 19:02:09.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.176][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-09 19:02:09.178][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-09 19:02:09.180][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-09 19:02:09.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.201][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-09 19:02:09.202][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-09 19:02:09.204][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-09 19:02:09.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.208][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-09 19:02:09.209][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-09 19:02:09.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.212][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-09 19:02:09.213][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-09 19:02:09.214][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-09 19:02:09.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.217][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-09 19:02:09.217][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-09 19:02:09.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.221][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-09 19:02:09.222][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-09 19:02:09.223][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-09 19:02:09.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.228][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-09 19:02:09.229][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-09 19:02:09.230][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-09 19:02:09.231][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-09 19:02:09.232][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-09 19:02:09.234][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-09 19:02:09.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.238][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-09 19:02:09.239][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-09 19:02:09.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.243][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-09 19:02:09.244][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-09 19:02:09.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.249][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-09 19:02:09.250][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-09 19:02:09.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.254][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-09 19:02:09.255][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-09 19:02:09.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.259][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-09 19:02:09.260][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-09 19:02:09.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.265][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-09 19:02:09.266][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-09 19:02:09.308][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-09 19:02:09.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.314][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-09 19:02:09.315][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-09 19:02:09.316][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-09 19:02:09.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.324][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-09 19:02:09.367][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.389][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-09 19:02:09.391][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.392][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:09.393][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.395][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.396][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.397][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.398][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-09 19:02:09.400][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:09.401][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.401][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-09 19:02:09.402][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:09.404][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.405][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.406][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:09.406][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:09.406][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:09.406][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-09 19:02:09.406][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-09 19:02:09.408][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:09.409][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:09.410][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:09.411][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:09.413][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:09.414][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:09.415][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.417][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.418][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:09.419][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:09.420][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.421][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.422][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-09 19:02:09.425][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.426][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-09 19:02:09.428][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.429][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:09.430][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.431][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.432][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.433][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.434][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-09 19:02:09.434][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:09.435][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.436][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-09 19:02:09.438][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:09.439][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.440][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.441][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:09.441][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:09.441][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:09.441][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-09 19:02:09.441][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-09 19:02:09.442][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:09.443][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:09.444][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:09.445][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:09.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:09.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:09.448][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.449][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.450][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:09.451][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:09.452][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.454][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.455][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-09 19:02:09.458][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.459][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-09 19:02:09.460][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.462][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:09.463][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.464][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.465][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.466][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.467][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-09 19:02:09.468][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:09.476][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.478][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-09 19:02:09.479][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:09.480][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.481][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.483][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.484][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:09.484][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:09.485][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:09.487][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:09.488][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:09.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:09.490][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.491][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.493][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:09.494][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:09.495][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.496][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.497][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-09 19:02:09.499][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.501][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-09 19:02:09.502][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.503][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:09.505][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.506][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.506][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.507][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.508][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-09 19:02:09.509][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:09.510][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.511][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-09 19:02:09.512][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:09.514][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.515][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.516][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.517][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:09.518][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:09.519][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:09.520][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:09.521][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:09.522][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:09.522][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.523][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.524][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:09.525][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:09.526][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.527][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:09.531][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:09.532][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.563][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[2024-06-09 19:02:09.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.575][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[2024-06-09 19:02:09.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.582][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[2024-06-09 19:02:09.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.593][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[2024-06-09 19:02:09.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.599][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[2024-06-09 19:02:09.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.620][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-09 19:02:09.627][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-09 19:02:09.629][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-09 19:02:09.631][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-09 19:02:09.633][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-09 19:02:09.635][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-09 19:02:09.637][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-09 19:02:09.639][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-09 19:02:09.641][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-09 19:02:09.643][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-09 19:02:09.645][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-09 19:02:09.646][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-09 19:02:09.648][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-09 19:02:09.649][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-09 19:02:09.651][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-09 19:02:09.653][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-09 19:02:09.655][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-09 19:02:09.657][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-09 19:02:09.659][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-09 19:02:09.661][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-09 19:02:09.663][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-09 19:02:09.664][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-09 19:02:09.665][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-09 19:02:09.666][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-09 19:02:09.667][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-09 19:02:09.669][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-09 19:02:09.670][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-09 19:02:09.671][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-09 19:02:09.673][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-09 19:02:09.675][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-09 19:02:09.677][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-09 19:02:09.678][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-09 19:02:09.680][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-09 19:02:09.681][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-09 19:02:09.682][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-09 19:02:09.684][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-09 19:02:09.686][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-09 19:02:09.688][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-09 19:02:09.689][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-09 19:02:09.691][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-09 19:02:09.693][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-09 19:02:09.695][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-09 19:02:09.697][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-09 19:02:09.698][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-09 19:02:09.707][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-09 19:02:09.709][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-09 19:02:09.711][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-09 19:02:09.713][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-09 19:02:09.715][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-09 19:02:09.717][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-09 19:02:09.719][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-09 19:02:09.720][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-09 19:02:09.722][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-09 19:02:09.723][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-09 19:02:09.724][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-09 19:02:09.726][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-09 19:02:09.727][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-09 19:02:09.729][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-09 19:02:09.731][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-09 19:02:09.733][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-09 19:02:09.734][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-09 19:02:09.736][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-09 19:02:09.738][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-09 19:02:09.740][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-09 19:02:09.742][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-09 19:02:09.743][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-09 19:02:09.745][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-09 19:02:09.747][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-09 19:02:09.748][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-09 19:02:09.750][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-09 19:02:09.752][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-09 19:02:09.753][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-09 19:02:09.755][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-09 19:02:09.757][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-09 19:02:09.759][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-09 19:02:09.760][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-09 19:02:09.762][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-09 19:02:09.764][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-09 19:02:09.766][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-09 19:02:09.768][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-09 19:02:09.770][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-09 19:02:09.771][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-09 19:02:09.773][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-09 19:02:09.781][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-09 19:02:09.783][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-09 19:02:09.786][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:09.787][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.789][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.820][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[2024-06-09 19:02:09.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.865][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[2024-06-09 19:02:09.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.872][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.DEBUG[2024-06-09 19:02:09.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.902][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[2024-06-09 19:02:09.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:09.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:09.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:09.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:09.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:09.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:09.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:09.928][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-09 19:02:09.948][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-09 19:02:09.950][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.952][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.953][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.954][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:09.955][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.956][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.958][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.959][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-09 19:02:09.960][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-09 19:02:09.961][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:09.963][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.964][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-09 19:02:09.965][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:09.966][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-09 19:02:09.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-09 19:02:09.966][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-09 19:02:09.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-09 19:02:09.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-09 19:02:09.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-09 19:02:09.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-09 19:02:09.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-09 19:02:09.966][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-09 19:02:09.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-09 19:02:09.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-09 19:02:09.967][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:09.968][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:09.968][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:09.968][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:09.968][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-09 19:02:09.969][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:09.970][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:09.971][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:09.972][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:09.973][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:09.975][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:09.977][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-09 19:02:09.977][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-09 19:02:09.978][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:09.979][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:09.981][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:09.983][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-09 19:02:09.983][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-09 19:02:09.991][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-09 19:02:09.993][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-09 19:02:09.995][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-09 19:02:09.997][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-09 19:02:09.999][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-09 19:02:10.001][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-09 19:02:10.036][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-09 19:02:10.038][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-09 19:02:10.044][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-09 19:02:10.051][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-09 19:02:10.056][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-09 19:02:10.057][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-09 19:02:10.058][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-09 19:02:10.060][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-09 19:02:10.074][biodb::testThat]
biodb.INFO [2024-06-09 19:02:10.075][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-06-09 19:02:10.077][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:10.078][biodb::testThat]
biodb.TRACE[2024-06-09 19:02:10.083][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-06-09 19:02:10.085][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:10.089][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:10.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:10.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:10.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:10.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:10.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:10.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:10.122][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.TRACE[2024-06-09 19:02:10.132][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.134][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.137][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.160][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:10.161][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:10.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.164][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.200][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:10.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:10.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.206][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:10.208][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:10.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.210][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.212][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:10.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:10.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.217][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:10.231][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:10.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.233][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:10.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:10.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.239][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:10.241][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:10.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.243][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.245][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:10.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:10.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.250][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.251][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.252][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.253][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.257][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:10.258][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.259][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.260][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:10.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.264][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.265][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.266][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.271][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:10.272][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:10.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.274][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.275][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:10.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:10.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.279][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:10.280][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.281][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.282][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:10.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.286][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:10.287][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:10.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.288][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.290][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:10.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:10.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:10.366][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-06-09 19:02:10.369][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:10.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:10.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.374][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:10.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:10.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:10.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:10.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.457][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:10.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:10.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.470][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-09 19:02:10.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-09 19:02:10.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.475][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-09 19:02:10.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-09 19:02:10.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.480][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-09 19:02:10.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-09 19:02:10.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.485][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-09 19:02:10.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-09 19:02:10.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.616][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.618][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.620][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:10.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:10.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.658][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.661][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:10.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.678][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:10.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:10.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:10.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:10.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.690][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:10.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:10.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.695][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:10.696][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:10.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.698][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.700][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:10.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:10.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.717][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:10.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:10.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.723][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:10.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:10.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.728][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:10.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:10.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.734][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:10.735][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:10.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.738][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.739][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:10.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:10.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.765][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.766][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.768][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:10.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.802][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.804][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.806][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:10.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.824][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:10.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:10.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.831][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:10.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:10.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.837][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:10.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:10.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.842][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:10.851][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:10.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.854][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.855][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:10.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:10.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.873][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.880][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.884][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.888][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.890][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.892][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.894][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:10.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.909][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.916][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.921][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.927][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.929][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.931][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.933][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:10.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.950][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:10.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:10.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.957][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:10.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:10.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.963][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:10.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:10.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.969][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:10.971][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:10.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.973][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.974][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:10.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:10.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:10.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:10.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:10.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:10.998][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:10.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.003][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.008][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.010][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.012][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.048][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.049][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.052][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.070][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:11.072][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:11.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.075][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.089][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:11.091][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:11.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.094][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.102][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:11.104][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:11.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.107][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.113][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.115][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.118][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.124][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.126][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.128][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.135][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:11.136][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:11.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.139][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.146][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:11.147][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:11.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.149][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.156][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:11.157][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:11.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.160][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.168][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-09 19:02:11.169][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:11.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.171][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.178][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:11.179][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:11.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.180][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.187][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:11.188][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:11.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.190][ef$get] fields variable is a list.
biodb.INFO [2024-06-09 19:02:11.202][biodb::testThat]
biodb.INFO [2024-06-09 19:02:11.203][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-06-09 19:02:11.205][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:11.205][biodb::testThat]
biodb.DEBUG[2024-06-09 19:02:11.223][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-06-09 19:02:11.234][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:11.238][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-06-09 19:02:11.239][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:11.240][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-06-09 19:02:11.242][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:11.271][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:11.273][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:11.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:11.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:11.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:11.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:11.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:11.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:11.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:11.288][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:11.290][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:11.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.292][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:11.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:11.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.326][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:11.328][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:11.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.331][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.333][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:11.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:11.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.338][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:11.340][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:11.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.342][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.343][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:11.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:11.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.347][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.348][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.351][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.358][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.359][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.361][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.369][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:11.370][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:11.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.372][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.373][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:11.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:11.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.377][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:11.379][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:11.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.381][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.383][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:11.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:11.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.388][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:11.389][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:11.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.392][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:11.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:11.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.398][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:11.398][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:11.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.400][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.402][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:11.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:11.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.406][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:11.407][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:11.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.409][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.410][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:11.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:11.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.416][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:11.417][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:11.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.419][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.420][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:11.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:11.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:11.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:11.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:11.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:11.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:11.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:11.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:11.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:11.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:11.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:11.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:11.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:11.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:11.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:11.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:11.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:11.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:11.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:11.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:11.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:11.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:11.467][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-06-09 19:02:11.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-06-09 19:02:11.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-06-09 19:02:11.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-06-09 19:02:11.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-06-09 19:02:11.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-06-09 19:02:11.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-06-09 19:02:11.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-09 19:02:11.498][biodb::testThat]
biodb.INFO [2024-06-09 19:02:11.500][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-06-09 19:02:11.501][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:11.502][biodb::testThat]
biodb.TRACE[2024-06-09 19:02:11.506][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:11.508][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:11.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.510][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:11.512][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-06-09 19:02:11.546][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:11.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:11.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.552][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:11.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:11.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.557][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:11.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:11.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:11.566][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-06-09 19:02:11.571][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-09 19:02:11.596][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:11.615][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-09 19:02:11.617][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:11.619][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-09 19:02:11.649][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:11.655][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:11.657][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-09 19:02:11.659][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:11.661][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-09 19:02:11.664][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-06-09 19:02:11.690][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:11.692][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:11.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.695][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.696][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:11.697][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:11.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.700][ef$get] fields variable is a list.
biodb.INFO [2024-06-09 19:02:11.707][biodb::testThat]
biodb.INFO [2024-06-09 19:02:11.708][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-06-09 19:02:11.709][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:11.710][biodb::testThat]
biodb.TRACE[2024-06-09 19:02:11.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:11.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:11.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:11.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:11.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:11.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:11.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:11.835][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:11.839][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:11.841][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-09 19:02:11.842][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:11.844][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-06-09 19:02:11.869][biodb::testThat]
biodb.INFO [2024-06-09 19:02:11.870][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-06-09 19:02:11.871][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:11.873][biodb::testThat]
biodb.TRACE[2024-06-09 19:02:11.903][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:11.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:11.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:11.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:11.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.936][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-09 19:02:11.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-09 19:02:11.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.940][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-09 19:02:11.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-09 19:02:11.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.946][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-09 19:02:11.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-09 19:02:11.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-09 19:02:11.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-09 19:02:11.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.982][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:11.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:11.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:11.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:11.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:11.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:12.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:12.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:12.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:12.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:12.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:12.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:12.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:12.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:12.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:12.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:12.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:12.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:12.016][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-09 19:02:12.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-09 19:02:12.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:12.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:12.021][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-09 19:02:12.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-09 19:02:12.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:12.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:12.027][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-09 19:02:12.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-09 19:02:12.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:12.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:12.031][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-09 19:02:12.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-09 19:02:12.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:12.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-09 19:02:12.045][biodb::testThat]
biodb.INFO [2024-06-09 19:02:12.046][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-06-09 19:02:12.047][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:12.048][biodb::testThat]
biodb.INFO [2024-06-09 19:02:12.060][biodb::testThat]
biodb.INFO [2024-06-09 19:02:12.062][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-06-09 19:02:12.063][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:12.065][biodb::testThat]
biodb.INFO [2024-06-09 19:02:12.077][biodb::testThat]
biodb.INFO [2024-06-09 19:02:12.086][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-06-09 19:02:12.088][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:12.089][biodb::testThat]
biodb.DEBUG[2024-06-09 19:02:12.095][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-06-09 19:02:12.987][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-06-09 19:02:14.287][biodb::testThat]
biodb.INFO [2024-06-09 19:02:14.289][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-06-09 19:02:14.290][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:14.290][biodb::testThat]
biodb.DEBUG[2024-06-09 19:02:14.675][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2024-06-09 19:02:15.081][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:15.083][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:15.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.085][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.086][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:15.087][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:15.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.089][ef$get] fields variable is a list.
biodb.INFO [2024-06-09 19:02:15.106][biodb::testThat]
biodb.INFO [2024-06-09 19:02:15.107][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-06-09 19:02:15.108][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:15.109][biodb::testThat]
biodb.TRACE[2024-06-09 19:02:15.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:15.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:15.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.129][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:15.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:15.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:15.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:15.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:15.232][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:15.237][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:15.238][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-09 19:02:15.240][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:15.241][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-09 19:02:15.322][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:15.325][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:15.326][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-09 19:02:15.327][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:15.329][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-06-09 19:02:15.347][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-09 19:02:15.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-09 19:02:15.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:15.391][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:15.396][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:15.397][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-09 19:02:15.399][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:15.409][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-09 19:02:15.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:15.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:15.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:15.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:15.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:15.423][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:15.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:15.426][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-06-09 19:02:15.467][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:15.469][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-06-09 19:02:15.471][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:15.473][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2024-06-09 19:02:15.474][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:15.476][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:15.477][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:15.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:15.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:15.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:15.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:15.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:15.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:15.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:15.493][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.494][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.495][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.500][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:15.501][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:15.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.502][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.503][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:15.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:15.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.507][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:15.508][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:15.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.509][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.516][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:15.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:15.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.522][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:15.523][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:15.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.524][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:15.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:15.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.529][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:15.530][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:15.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.532][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.534][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:15.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:15.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.538][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:15.539][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:15.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.541][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.542][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:15.543][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.545][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.546][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:15.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.552][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:15.553][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:15.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.555][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:15.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:15.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.561][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:15.562][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:15.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.565][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:15.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:15.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.571][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:15.572][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:15.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.575][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.576][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:15.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:15.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.579][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:15.580][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:15.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.582][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.583][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:15.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:15.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:15.629][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-06-09 19:02:15.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:15.657][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:15.659][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:15.660][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-09 19:02:15.661][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:15.663][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-09 19:02:15.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:15.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:15.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:15.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:15.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:15.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:15.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:15.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:15.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:15.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:15.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:15.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:15.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:15.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:15.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:15.719][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-06-09 19:02:15.720][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:15.722][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-06-09 19:02:15.723][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:15.725][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2024-06-09 19:02:15.726][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:15.728][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:15.729][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:15.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:15.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:15.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:15.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:15.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:15.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:15.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:15.747][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.748][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.751][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.758][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:15.759][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:15.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.761][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.762][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:15.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:15.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.771][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:15.772][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:15.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.774][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.776][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:15.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:15.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.781][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:15.781][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:15.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.783][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:15.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:15.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.788][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:15.788][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:15.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.790][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:15.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:15.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.797][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:15.797][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:15.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.799][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.800][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:15.801][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.803][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.804][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:15.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.807][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:15.808][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:15.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.810][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:15.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:15.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.815][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:15.817][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:15.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.819][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:15.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:15.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.825][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:15.827][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:15.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.829][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.831][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:15.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:15.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.836][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:15.838][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:15.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.840][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.841][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:15.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:15.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:15.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:15.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:15.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:15.895][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-06-09 19:02:15.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:15.932][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:15.935][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:15.936][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-09 19:02:15.937][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:15.939][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-09 19:02:15.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:15.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:15.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:15.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:15.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:15.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:15.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:15.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:15.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:15.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:15.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:15.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:15.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:15.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:15.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:15.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:15.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:15.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:15.980][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-06-09 19:02:15.982][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:15.983][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-06-09 19:02:15.985][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:15.987][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2024-06-09 19:02:15.989][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:15.990][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:15.992][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:15.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:15.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:15.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:16.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:16.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:16.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:16.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:16.007][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.008][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.010][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.014][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:16.015][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:16.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.017][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.018][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:16.019][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:16.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.022][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:16.023][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:16.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.029][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.031][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.032][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.034][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.035][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.036][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.037][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.039][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:16.040][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.041][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.042][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.043][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.045][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.046][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:16.047][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:16.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.049][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.050][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:16.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:16.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.054][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:16.054][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:16.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.056][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.057][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:16.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:16.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.061][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:16.062][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:16.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.063][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:16.098][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-06-09 19:02:16.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:16.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:16.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:16.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:16.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:16.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:16.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:16.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:16.128][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-06-09 19:02:16.129][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:16.137][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-06-09 19:02:16.138][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:16.139][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2024-06-09 19:02:16.141][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:16.143][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:16.144][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:16.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:16.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:16.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:16.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:16.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:16.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:16.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:16.159][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.160][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.162][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.169][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:16.170][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:16.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.171][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.172][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:16.173][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:16.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.175][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.176][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:16.177][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:16.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.179][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.181][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.183][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.185][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.187][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.188][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.191][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.192][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:16.194][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.196][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.198][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.199][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.201][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.203][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:16.203][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:16.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.205][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:16.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:16.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.210][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:16.211][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:16.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.213][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.214][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:16.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:16.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.217][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:16.218][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:16.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.219][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:16.267][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-06-09 19:02:16.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:16.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:16.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:16.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:16.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:16.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:16.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:16.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:16.311][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-06-09 19:02:16.312][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:16.314][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-06-09 19:02:16.316][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:16.318][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2024-06-09 19:02:16.319][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:16.321][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:16.322][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:16.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:16.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:16.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:16.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:16.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:16.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:16.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:16.337][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.339][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.341][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.348][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:16.349][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:16.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.351][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.353][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:16.354][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:16.356][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.357][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.359][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:16.360][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:16.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.361][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.363][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.364][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.366][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.367][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.368][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.370][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.371][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:16.372][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.374][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.375][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.376][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.378][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.379][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:16.380][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:16.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.382][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:16.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:16.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.389][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:16.390][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:16.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.393][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.394][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:16.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:16.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.404][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:16.406][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:16.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.408][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:16.464][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-06-09 19:02:16.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:16.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:16.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:16.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:16.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:16.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:16.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:16.507][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[2024-06-09 19:02:16.509][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-06-09 19:02:16.510][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:16.512][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-06-09 19:02:16.514][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:16.516][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2024-06-09 19:02:16.517][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:16.518][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:16.519][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:16.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:16.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:16.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:16.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:16.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:16.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:16.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:16.535][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.536][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.538][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.543][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:16.544][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:16.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.546][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.555][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:16.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:16.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.561][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:16.562][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:16.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.564][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.566][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:16.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:16.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.570][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:16.571][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:16.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.573][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.574][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:16.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:16.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.578][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.579][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.581][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.582][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.586][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.587][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.589][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.590][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.595][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:16.597][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.599][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.601][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:16.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.604][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.605][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.607][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.614][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:16.615][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:16.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.617][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.618][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:16.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:16.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.623][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:16.624][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:16.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.626][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.627][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:16.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:16.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.631][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:16.632][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:16.633][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.634][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.636][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:16.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:16.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:16.713][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-06-09 19:02:16.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:16.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:16.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:16.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:16.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:16.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:16.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:16.741][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[2024-06-09 19:02:16.743][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-06-09 19:02:16.744][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:16.746][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-06-09 19:02:16.747][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:16.749][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2024-06-09 19:02:16.751][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:16.752][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:16.754][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:16.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:16.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:16.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:16.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:16.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:16.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:16.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:16.768][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.769][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.770][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.775][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:16.776][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:16.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.777][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.778][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:16.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:16.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.782][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:16.783][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:16.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.786][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.788][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:16.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:16.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.793][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:16.795][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:16.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.797][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:16.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:16.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.804][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.806][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.808][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.809][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:16.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.813][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.814][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.815][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.816][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.818][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:16.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.823][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:16.824][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.826][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.827][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:16.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.830][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.831][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.839][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:16.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.847][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:16.848][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:16.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.850][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.851][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:16.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:16.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.856][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:16.857][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:16.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.858][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.859][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:16.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:16.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.863][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:16.865][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:16.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.867][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.869][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:16.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:16.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:16.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:16.919][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-06-09 19:02:16.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:16.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:16.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:16.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:16.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:16.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:16.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:16.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:16.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:16.947][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-06-09 19:02:16.948][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:16.950][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-06-09 19:02:16.952][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:16.954][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2024-06-09 19:02:16.955][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:16.956][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:16.958][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:16.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:16.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:16.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:16.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:16.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:16.970][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:16.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:16.978][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.979][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.981][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:16.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:16.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.986][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:16.986][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:16.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.988][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.989][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:16.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:16.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.992][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:16.993][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:16.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.995][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.996][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:16.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:16.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:16.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:16.999][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:17.000][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:17.001][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.002][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.003][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:17.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:17.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.007][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.008][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.009][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.014][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:17.015][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:17.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.016][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.017][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:17.018][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.021][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:17.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.024][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.025][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.027][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.032][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:17.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:17.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.034][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.035][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:17.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:17.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.039][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:17.040][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:17.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.041][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.042][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:17.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:17.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.046][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:17.047][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:17.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.048][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.049][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:17.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:17.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:17.092][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-06-09 19:02:17.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:17.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:17.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:17.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:17.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:17.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:17.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:17.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:17.118][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-06-09 19:02:17.119][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:17.122][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-06-09 19:02:17.124][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:17.126][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2024-06-09 19:02:17.127][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:17.129][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:17.131][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:17.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:17.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:17.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:17.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:17.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:17.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:17.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:17.150][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.152][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.154][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.162][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:17.163][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:17.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.166][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.168][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:17.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:17.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.172][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:17.173][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:17.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.175][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.176][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:17.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:17.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.181][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:17.182][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:17.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.185][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.187][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:17.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:17.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.192][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.193][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.195][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.201][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:17.203][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:17.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.205][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.207][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:17.208][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.211][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.213][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:17.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.225][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.227][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.230][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.237][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:17.238][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:17.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.240][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.241][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:17.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:17.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.245][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:17.246][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:17.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.248][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.249][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:17.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:17.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.254][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:17.255][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:17.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.258][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.259][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:17.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:17.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:17.303][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-06-09 19:02:17.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:17.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:17.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:17.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:17.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:17.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:17.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:17.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:17.327][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-06-09 19:02:17.328][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:17.330][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-06-09 19:02:17.332][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:17.334][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2024-06-09 19:02:17.335][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:17.336][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:17.337][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:17.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:17.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:17.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:17.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:17.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:17.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:17.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:17.358][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.359][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.361][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.368][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:17.369][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:17.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.371][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.372][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:17.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:17.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.375][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:17.376][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:17.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.379][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.381][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:17.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:17.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.385][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:17.386][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:17.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.388][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:17.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:17.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.396][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.398][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.403][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:17.404][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:17.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.406][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.407][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:17.408][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.410][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.411][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:17.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.416][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.417][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.419][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.424][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:17.425][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:17.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.427][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:17.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:17.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.434][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:17.435][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:17.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.438][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.440][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:17.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:17.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.445][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:17.446][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:17.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.448][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.449][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:17.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:17.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:17.502][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-06-09 19:02:17.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:17.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:17.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:17.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:17.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:17.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:17.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:17.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:17.527][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-06-09 19:02:17.529][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:17.530][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-06-09 19:02:17.548][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:17.553][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2024-06-09 19:02:17.555][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:17.557][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:17.558][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:17.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:17.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:17.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:17.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:17.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:17.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:17.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:17.575][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.576][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.578][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.584][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:17.585][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:17.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.587][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.589][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:17.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:17.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.594][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:17.596][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:17.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.598][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.600][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:17.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:17.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.603][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:17.604][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:17.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.606][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:17.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:17.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.613][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.614][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.617][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.623][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:17.624][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:17.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.626][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.627][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:17.629][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.639][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.641][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:17.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.647][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.648][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.650][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.656][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:17.657][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:17.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.659][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:17.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:17.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.666][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:17.668][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:17.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.670][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.671][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:17.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:17.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.677][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:17.678][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:17.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.680][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.681][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:17.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:17.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:17.732][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-06-09 19:02:17.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:17.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:17.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:17.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:17.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:17.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:17.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:17.757][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[2024-06-09 19:02:17.758][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-06-09 19:02:17.759][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:17.761][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-06-09 19:02:17.763][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:17.764][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2024-06-09 19:02:17.766][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:17.767][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:17.769][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:17.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:17.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:17.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:17.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:17.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:17.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:17.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:17.792][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.794][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.796][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.802][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:17.803][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:17.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.804][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.806][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:17.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:17.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.809][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:17.810][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:17.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.812][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.814][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:17.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:17.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.818][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:17.819][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:17.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.821][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:17.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:17.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.828][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.829][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.831][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:17.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:17.839][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:17.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.841][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.842][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:17.843][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.845][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.846][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:17.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.851][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.852][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.855][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:17.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.860][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:17.861][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:17.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.864][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:17.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:17.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.870][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:17.871][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:17.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.872][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:17.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:17.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.877][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:17.878][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:17.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.880][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:17.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:17.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:17.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:17.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:17.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:17.939][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-06-09 19:02:17.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:17.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:17.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:17.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:17.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:17.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:17.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:17.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:17.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:17.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:17.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:17.971][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-06-09 19:02:17.972][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:17.974][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-06-09 19:02:17.976][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:17.978][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2024-06-09 19:02:17.980][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:17.981][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:17.983][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:17.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:17.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:17.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:17.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:17.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:17.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:18.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:18.003][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.004][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.006][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.010][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.012][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.014][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.016][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.020][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:18.021][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:18.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.023][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.024][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:18.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:18.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.029][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:18.029][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:18.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.031][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.033][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.034][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.036][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.038][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:18.039][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:18.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.040][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.041][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:18.042][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.044][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.054][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:18.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.059][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.060][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.061][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.066][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:18.067][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:18.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.069][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.070][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:18.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:18.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.073][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:18.075][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:18.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.077][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.079][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:18.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:18.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.085][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:18.086][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:18.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.089][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:18.137][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-06-09 19:02:18.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:18.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:18.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:18.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:18.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:18.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:18.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:18.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:18.160][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-06-09 19:02:18.160][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:18.162][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-06-09 19:02:18.163][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:18.165][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2024-06-09 19:02:18.166][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:18.167][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:18.169][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:18.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:18.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:18.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:18.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:18.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:18.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:18.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:18.191][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.192][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.194][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.199][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.200][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.201][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.203][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.208][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:18.209][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:18.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.211][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.212][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:18.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:18.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.216][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:18.217][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:18.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.218][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.219][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.220][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.223][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.224][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:18.226][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:18.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.228][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.229][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:18.230][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.232][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.234][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:18.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.238][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.239][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.241][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.248][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:18.249][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:18.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.251][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.253][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:18.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:18.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.259][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:18.260][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:18.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.262][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.264][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:18.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:18.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.269][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:18.270][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:18.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.272][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:18.329][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-06-09 19:02:18.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:18.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:18.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:18.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:18.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:18.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:18.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:18.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:18.355][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-06-09 19:02:18.356][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:18.358][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-06-09 19:02:18.360][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:18.362][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2024-06-09 19:02:18.364][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:18.365][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:18.367][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:18.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:18.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:18.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:18.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:18.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:18.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:18.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:18.383][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.384][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.387][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.392][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.393][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.395][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.396][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.402][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:18.403][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:18.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.405][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.407][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:18.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:18.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.412][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:18.414][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:18.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.416][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.417][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:18.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:18.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.421][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.422][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.423][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.424][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.431][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:18.432][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:18.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.434][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.436][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:18.437][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.439][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.441][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:18.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.445][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.446][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.454][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.461][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:18.462][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:18.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.464][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:18.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:18.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.469][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:18.470][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:18.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.473][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.475][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:18.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:18.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.479][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:18.480][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:18.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.482][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.484][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:18.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:18.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:18.529][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-06-09 19:02:18.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:18.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:18.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:18.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:18.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:18.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:18.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:18.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:18.554][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-06-09 19:02:18.555][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:18.557][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-06-09 19:02:18.559][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:18.561][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2024-06-09 19:02:18.562][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:18.564][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:18.565][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:18.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:18.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:18.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:18.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:18.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:18.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:18.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:18.586][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.588][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.590][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.596][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.597][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.599][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.600][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.605][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:18.607][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:18.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.609][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.611][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:18.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:18.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.616][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:18.617][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:18.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.620][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:18.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:18.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.626][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.627][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.629][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.634][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:18.634][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:18.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.636][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.638][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:18.640][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.642][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.644][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:18.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.648][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.649][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.651][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.655][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:18.656][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:18.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.658][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:18.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:18.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.665][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:18.666][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:18.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.668][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.669][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:18.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:18.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.674][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:18.676][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:18.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.678][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.679][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:18.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:18.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:18.736][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-06-09 19:02:18.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:18.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:18.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:18.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:18.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:18.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:18.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:18.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:18.766][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-06-09 19:02:18.767][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:18.769][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-06-09 19:02:18.771][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:18.773][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2024-06-09 19:02:18.775][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:18.776][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:18.777][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:18.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:18.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:18.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:18.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:18.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:18.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:18.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:18.792][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.793][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.794][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.799][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.800][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.801][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.802][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.806][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:18.806][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:18.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.808][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.809][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:18.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:18.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.813][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:18.813][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:18.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:18.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:18.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.821][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.823][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.825][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:18.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.831][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:18.832][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:18.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.834][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.835][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:18.836][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.844][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.845][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:18.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.849][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.850][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.852][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:18.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.857][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:18.858][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:18.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.860][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.862][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:18.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:18.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.866][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:18.867][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:18.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.869][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.871][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:18.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:18.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.875][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:18.876][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:18.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.878][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.879][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:18.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:18.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:18.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:18.924][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-06-09 19:02:18.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:18.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:18.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:18.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:18.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:18.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:18.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:18.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:18.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:18.947][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-06-09 19:02:18.948][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:18.949][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-06-09 19:02:18.951][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:18.953][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2024-06-09 19:02:18.955][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:18.963][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:18.964][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:18.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:18.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:18.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:18.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:18.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:18.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:18.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:18.979][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.980][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.982][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:18.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:18.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.987][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.988][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.991][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.992][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:18.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:18.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:18.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:18.997][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:18.998][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:19.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.001][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.002][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:19.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:19.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.008][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:19.009][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:19.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.011][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:19.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:19.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.017][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.018][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.019][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.024][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:19.025][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:19.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.028][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.029][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:19.030][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.032][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.033][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:19.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.037][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.038][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.040][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.046][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:19.048][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:19.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.050][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:19.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:19.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.055][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:19.057][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:19.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.059][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.060][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:19.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:19.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.064][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:19.066][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:19.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.068][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.070][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:19.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:19.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.126][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-06-09 19:02:19.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.150][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:19.156][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-06-09 19:02:19.157][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:19.159][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-06-09 19:02:19.161][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:19.163][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2024-06-09 19:02:19.164][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:19.166][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:19.167][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:19.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:19.183][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.184][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.186][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.192][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:19.193][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:19.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.195][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.197][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:19.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:19.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.201][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:19.202][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:19.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.204][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.206][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:19.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:19.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.211][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:19.213][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:19.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.215][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:19.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:19.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.220][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.221][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.230][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.237][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:19.237][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:19.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.239][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.240][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:19.241][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.243][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.244][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:19.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.247][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.248][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.250][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.254][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:19.255][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:19.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.257][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:19.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:19.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.262][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:19.262][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:19.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.264][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.265][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:19.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:19.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.268][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:19.269][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:19.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.271][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.272][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:19.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:19.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.320][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-06-09 19:02:19.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:19.354][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-06-09 19:02:19.355][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:19.356][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-06-09 19:02:19.357][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:19.359][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2024-06-09 19:02:19.360][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:19.361][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:19.362][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:19.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:19.377][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.378][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.380][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.386][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:19.388][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:19.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.390][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.392][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:19.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:19.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.395][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:19.397][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:19.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.399][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.401][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:19.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:19.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.406][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:19.407][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:19.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.410][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:19.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:19.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.415][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.416][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.418][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.419][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.422][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:19.423][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:19.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.426][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.428][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:19.429][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.432][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.433][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:19.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.438][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.439][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.442][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.447][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:19.447][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:19.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.449][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:19.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:19.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.456][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:19.457][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:19.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.459][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.460][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:19.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:19.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.465][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:19.467][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:19.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.469][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.471][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:19.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:19.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.526][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-06-09 19:02:19.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:19.548][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-06-09 19:02:19.549][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:19.550][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-06-09 19:02:19.551][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:19.553][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2024-06-09 19:02:19.554][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:19.556][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:19.557][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:19.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:19.570][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.571][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.573][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.578][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:19.579][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:19.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.581][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.582][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:19.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:19.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.586][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:19.588][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:19.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.590][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.592][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:19.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:19.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.603][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:19.605][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:19.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.607][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:19.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:19.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.613][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.614][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.616][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:19.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.622][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:19.623][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:19.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.625][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.627][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:19.628][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.630][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.632][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:19.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.637][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.638][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.640][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:19.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.647][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:19.649][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:19.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.651][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.653][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:19.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:19.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.658][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:19.659][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:19.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.662][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.664][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:19.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:19.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.668][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:19.669][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:19.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.671][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.673][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:19.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:19.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:19.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:19.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:19.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.715][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-06-09 19:02:19.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.760][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:19.764][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:19.766][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-09 19:02:19.767][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:19.769][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-09 19:02:19.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:19.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:19.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:19.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:19.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.916][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.TRACE[2024-06-09 19:02:19.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.939][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.TRACE[2024-06-09 19:02:19.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:19.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:19.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:19.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:19.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:19.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:19.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:19.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:19.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:19.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:19.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:19.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:19.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.078][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.TRACE[2024-06-09 19:02:20.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.280][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.412][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:20.418][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:20.420][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2024-06-09 19:02:20.422][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:20.424][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2024-06-09 19:02:20.428][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:20.432][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:20.434][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2024-06-09 19:02:20.435][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:20.437][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2024-06-09 19:02:20.440][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:20.454][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-06-09 19:02:20.456][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:20.458][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-06-09 19:02:20.459][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:20.461][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2024-06-09 19:02:20.463][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:20.464][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:20.466][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:20.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.480][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.481][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.483][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.489][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:20.490][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:20.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.492][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.494][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:20.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:20.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.499][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:20.500][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:20.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.502][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.503][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:20.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:20.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.508][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:20.510][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:20.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.512][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:20.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:20.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.519][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:20.521][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:20.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.523][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:20.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:20.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.530][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:20.531][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:20.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.533][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.534][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:20.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:20.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.538][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:20.539][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.540][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.541][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:20.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.551][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.552][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.553][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.558][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:20.559][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:20.560][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.561][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.562][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:20.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:20.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.566][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:20.567][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:20.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.568][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.569][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:20.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:20.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.573][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:20.574][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:20.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.576][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.577][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:20.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:20.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.624][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-06-09 19:02:20.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:20.679][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-06-09 19:02:20.680][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:20.682][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-06-09 19:02:20.683][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:20.684][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2024-06-09 19:02:20.685][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:20.687][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:20.688][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:20.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.706][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.707][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.710][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.717][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:20.718][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:20.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.721][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.722][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:20.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:20.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.726][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:20.728][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:20.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.730][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.731][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:20.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:20.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.736][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:20.737][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:20.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.739][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:20.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:20.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.745][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:20.746][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:20.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.748][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:20.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:20.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.754][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:20.756][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:20.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.758][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.760][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:20.761][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.763][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.765][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:20.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:20.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.770][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.771][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.773][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.779][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:20.781][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:20.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.783][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:20.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:20.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.791][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:20.793][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:20.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.795][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.797][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:20.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:20.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.809][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:20.810][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:20.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.813][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.814][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:20.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:20.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:20.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:20.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:20.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.859][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-06-09 19:02:20.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.899][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:20.902][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:20.903][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-09 19:02:20.904][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:20.906][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-09 19:02:20.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:20.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.955][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[2024-06-09 19:02:20.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:20.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:20.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:20.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:20.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:20.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:20.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:20.991][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.TRACE[2024-06-09 19:02:20.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:20.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:20.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:20.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.065][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.TRACE[2024-06-09 19:02:21.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.149][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.TRACE[2024-06-09 19:02:21.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.209][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.TRACE[2024-06-09 19:02:21.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.248][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[2024-06-09 19:02:21.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.541][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:21.545][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:21.547][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-09 19:02:21.549][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:21.551][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-09 19:02:21.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.566][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.TRACE[2024-06-09 19:02:21.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.624][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.TRACE[2024-06-09 19:02:21.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.725][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.TRACE[2024-06-09 19:02:21.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.752][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.TRACE[2024-06-09 19:02:21.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:21.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:21.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:21.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:21.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:21.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:21.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:21.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:21.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:21.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:21.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:21.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:22.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:22.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.087][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.TRACE[2024-06-09 19:02:22.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:22.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:22.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.188][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-09 19:02:22.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-09 19:02:22.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-09 19:02:22.203][biodb::testThat]
biodb.INFO [2024-06-09 19:02:22.205][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-06-09 19:02:22.206][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:22.207][biodb::testThat]
biodb.TRACE[2024-06-09 19:02:22.211][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-09 19:02:22.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-09 19:02:22.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.253][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[2024-06-09 19:02:22.257][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:22.262][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:22.264][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-09 19:02:22.266][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:22.268][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-09 19:02:22.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:22.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.299][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:22.302][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:22.304][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-09 19:02:22.305][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:22.307][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-09 19:02:22.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:22.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:22.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:22.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.372][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-09 19:02:22.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.563][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.TRACE[2024-06-09 19:02:22.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.571][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.571][private$selectFields]
biodb.TRACE[2024-06-09 19:02:22.572][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:22.573][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:22.574][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.574][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.576][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.578][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.579][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.581][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.583][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.584][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.586][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.587][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.588][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.591][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.592][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:22.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.615][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-09 19:02:22.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:22.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.637][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.638][private$selectFields]
biodb.TRACE[2024-06-09 19:02:22.639][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:22.640][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:22.641][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.641][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.643][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.645][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.646][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.648][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.650][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.651][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.652][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.653][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.657][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.659][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:22.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.673][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-09 19:02:22.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.686][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.TRACE[2024-06-09 19:02:22.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.697][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.698][private$selectFields]
biodb.TRACE[2024-06-09 19:02:22.699][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:22.700][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:22.701][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.703][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.704][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.706][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.707][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.708][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.710][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.711][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.712][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:22.713][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.714][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.716][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.718][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:22.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:22.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.734][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-09 19:02:22.736][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-09 19:02:22.737][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-09 19:02:22.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:22.875][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:22.880][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:22.882][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-09 19:02:22.884][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:22.887][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-09 19:02:22.891][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:22.896][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:22.899][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-09 19:02:22.900][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:22.902][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-09 19:02:22.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:22.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:22.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:22.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:22.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:22.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:22.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:22.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:22.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:22.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:22.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:22.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:22.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:22.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:23.036][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-09 19:02:23.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.079][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.TRACE[2024-06-09 19:02:23.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.089][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.090][private$selectFields]
biodb.TRACE[2024-06-09 19:02:23.092][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:23.093][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:23.094][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.095][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.097][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.099][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.100][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.101][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.104][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.105][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.106][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.108][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.111][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.112][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:23.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.129][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-09 19:02:23.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:23.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.200][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.202][private$selectFields]
biodb.TRACE[2024-06-09 19:02:23.203][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:23.204][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:23.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.209][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.212][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.213][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.215][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.217][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.218][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.233][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.236][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.239][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.240][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:23.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.258][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-09 19:02:23.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.270][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.272][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[2024-06-09 19:02:23.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.285][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.286][private$selectFields]
biodb.TRACE[2024-06-09 19:02:23.287][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:23.289][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:23.290][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.291][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.293][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.295][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.296][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.297][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.299][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.300][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.302][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.303][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.305][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.307][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.308][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:23.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.325][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-09 19:02:23.326][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-09 19:02:23.327][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-09 19:02:23.339][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-09 19:02:23.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-09 19:02:23.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-09 19:02:23.348][biodb::testThat]
biodb.INFO [2024-06-09 19:02:23.349][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-06-09 19:02:23.351][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:23.352][biodb::testThat]
biodb.TRACE[2024-06-09 19:02:23.356][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-09 19:02:23.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-09 19:02:23.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:23.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:23.396][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:23.405][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:23.406][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-09 19:02:23.407][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:23.409][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-09 19:02:23.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:23.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:23.438][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:23.442][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:23.444][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-09 19:02:23.446][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:23.448][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-09 19:02:23.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:23.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:23.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:23.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:23.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:23.501][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-09 19:02:23.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:23.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.525][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.526][private$selectFields]
biodb.TRACE[2024-06-09 19:02:23.527][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:23.528][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:23.529][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.530][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.531][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.534][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.536][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.538][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.540][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.541][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.542][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.543][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.545][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.546][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:23.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.563][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-09 19:02:23.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:23.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.587][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.588][private$selectFields]
biodb.TRACE[2024-06-09 19:02:23.590][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:23.591][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:23.591][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.593][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.594][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.596][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.598][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.599][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.600][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.602][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.603][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.604][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.606][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.607][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.608][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:23.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.624][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-09 19:02:23.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:23.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.648][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.649][private$selectFields]
biodb.TRACE[2024-06-09 19:02:23.650][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:23.651][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:23.653][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.654][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.658][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.659][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.660][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.662][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.663][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.665][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.666][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.667][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.668][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.669][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.670][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:23.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.687][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-09 19:02:23.688][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-09 19:02:23.689][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-09 19:02:23.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:23.727][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.742][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[2024-06-09 19:02:23.746][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:23.750][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:23.751][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-09 19:02:23.753][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:23.755][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-09 19:02:23.760][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:23.764][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:23.766][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-09 19:02:23.768][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:23.770][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-09 19:02:23.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:23.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:23.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:23.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:23.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.858][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[2024-06-09 19:02:23.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:23.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:23.873][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-09 19:02:23.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:23.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.902][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.903][private$selectFields]
biodb.TRACE[2024-06-09 19:02:23.905][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:23.906][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:23.907][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.910][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.912][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.913][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.914][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.917][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.918][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.920][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.921][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.922][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.925][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.926][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:23.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.942][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-09 19:02:23.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:23.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:23.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:23.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:23.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:23.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:23.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:23.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.967][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.968][private$selectFields]
biodb.TRACE[2024-06-09 19:02:23.969][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:23.971][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:23.972][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.973][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.977][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.982][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.983][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.984][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:23.985][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.986][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.988][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.990][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:23.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:23.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:23.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:23.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.007][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-09 19:02:24.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.037][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.038][private$selectFields]
biodb.TRACE[2024-06-09 19:02:24.039][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:24.040][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:24.041][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.043][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.044][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.047][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.048][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.052][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.055][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.058][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.059][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:24.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.078][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-09 19:02:24.079][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-09 19:02:24.080][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-09 19:02:24.094][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-09 19:02:24.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-09 19:02:24.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-09 19:02:24.107][biodb::testThat]
biodb.INFO [2024-06-09 19:02:24.109][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-06-09 19:02:24.110][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:24.111][biodb::testThat]
biodb.TRACE[2024-06-09 19:02:24.115][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-09 19:02:24.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-09 19:02:24.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:24.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.164][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[2024-06-09 19:02:24.167][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:24.170][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:24.172][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-09 19:02:24.173][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:24.175][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-09 19:02:24.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:24.210][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:24.215][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:24.217][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-09 19:02:24.219][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:24.220][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-09 19:02:24.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:24.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:24.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:24.288][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-09 19:02:24.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.324][private$selectFields]
biodb.TRACE[2024-06-09 19:02:24.325][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:24.326][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:24.327][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.328][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.329][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.332][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.333][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.334][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.337][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.338][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.339][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.341][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.342][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.344][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.345][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:24.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.363][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-09 19:02:24.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.392][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.393][private$selectFields]
biodb.TRACE[2024-06-09 19:02:24.395][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:24.396][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:24.397][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.398][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.399][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.402][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.405][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.408][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.409][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.411][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.413][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.416][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.417][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:24.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.434][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-09 19:02:24.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.461][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.462][private$selectFields]
biodb.TRACE[2024-06-09 19:02:24.462][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:24.463][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:24.464][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.465][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.466][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.468][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.468][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.469][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.471][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.473][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.474][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.475][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.477][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.479][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.480][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:24.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.496][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-09 19:02:24.498][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-09 19:02:24.499][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-09 19:02:24.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:24.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.575][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[2024-06-09 19:02:24.579][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:24.582][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:24.583][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-09 19:02:24.585][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:24.586][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-09 19:02:24.589][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:24.593][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:24.594][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-09 19:02:24.596][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:24.598][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-09 19:02:24.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.612][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:24.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:24.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:24.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:24.693][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-09 19:02:24.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.708][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.TRACE[2024-06-09 19:02:24.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.721][private$selectFields]
biodb.TRACE[2024-06-09 19:02:24.722][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:24.723][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:24.725][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.726][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.727][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.730][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.731][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.732][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.734][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.735][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.737][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.738][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.739][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.742][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.743][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:24.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.776][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-09 19:02:24.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.807][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.807][private$selectFields]
biodb.TRACE[2024-06-09 19:02:24.808][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:24.809][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:24.810][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.811][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.812][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.814][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.814][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.815][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.817][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.818][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.819][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.820][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.822][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.824][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.825][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:24.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.840][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-09 19:02:24.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.866][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.867][private$selectFields]
biodb.TRACE[2024-06-09 19:02:24.868][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-09 19:02:24.869][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-09 19:02:24.870][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.872][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.873][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.875][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.876][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.877][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.879][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.879][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.880][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-09 19:02:24.881][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.882][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.883][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.884][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-09 19:02:24.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:24.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.895][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-09 19:02:24.896][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-09 19:02:24.897][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-09 19:02:24.928][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-09 19:02:24.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-09 19:02:24.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-09 19:02:24.938][biodb::testThat]
biodb.INFO [2024-06-09 19:02:24.940][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-06-09 19:02:24.941][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:24.942][biodb::testThat]
biodb.DEBUG[2024-06-09 19:02:24.944][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-06-09 19:02:24.945][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:24.947][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-06-09 19:02:24.951][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:24.955][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2024-06-09 19:02:24.956][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:24.958][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:24.959][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:24.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:24.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:24.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:24.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:24.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:24.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:24.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:24.977][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:24.978][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:24.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.980][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:24.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:24.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.987][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:24.988][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:24.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.989][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.991][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:24.992][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:24.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:24.994][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:24.996][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:24.998][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:24.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.000][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.001][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.002][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.005][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.007][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.008][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.011][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.013][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:25.014][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:25.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.016][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.018][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.020][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.022][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.023][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:25.025][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:25.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.027][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.029][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:25.031][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:25.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.033][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.034][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:25.035][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:25.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.038][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:25.089][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-06-09 19:02:25.090][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-06-09 19:02:25.104][biodb::testThat]
biodb.INFO [2024-06-09 19:02:25.105][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-06-09 19:02:25.107][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:25.108][biodb::testThat]
biodb.DEBUG[2024-06-09 19:02:25.129][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-06-09 19:02:25.131][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-06-09 19:02:25.133][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-06-09 19:02:25.135][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-06-09 19:02:25.137][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2024-06-09 19:02:25.147][loadFileContents] Loaded 3 files from cache: [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2024-06-09 19:02:25.149][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:25.151][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-06-09 19:02:25.152][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:25.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:25.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:25.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:25.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:25.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:25.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.167][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.TRACE[2024-06-09 19:02:25.169][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.170][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.173][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.178][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:25.180][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:25.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.182][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.184][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:25.186][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:25.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.187][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.189][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:25.190][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:25.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.193][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.195][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.197][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.199][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.200][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.203][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.204][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:25.205][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:25.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.207][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.208][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.209][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.210][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.211][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:25.212][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:25.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.214][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.215][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:25.216][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:25.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.218][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.219][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:25.219][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:25.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.221][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:25.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:25.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:25.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:25.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:25.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:25.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:25.267][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.268][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.271][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.277][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:25.278][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:25.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.279][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.280][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:25.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:25.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.285][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:25.286][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:25.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.287][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.289][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:25.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:25.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.293][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:25.294][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:25.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.296][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:25.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:25.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.302][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.304][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.306][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.312][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.313][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.314][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.315][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.321][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:25.322][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:25.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.325][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.326][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:25.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:25.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.331][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.332][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.335][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.341][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:25.343][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:25.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.344][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:25.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:25.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.350][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:25.351][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:25.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.354][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.355][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:25.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:25.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.359][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:25.361][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:25.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.363][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.364][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:25.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:25.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:25.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:25.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:25.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:25.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:25.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:25.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:25.419][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.421][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.424][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.430][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:25.431][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:25.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.433][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.435][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:25.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:25.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.440][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:25.441][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:25.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.444][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.445][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:25.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:25.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.451][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:25.452][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:25.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.454][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:25.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:25.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.461][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.462][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.464][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:25.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.469][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.471][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.473][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.475][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:25.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.479][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:25.480][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:25.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.481][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.482][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:25.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:25.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.486][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.487][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.488][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.493][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:25.494][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:25.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.496][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.497][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:25.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:25.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.502][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:25.503][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:25.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.505][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.506][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:25.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:25.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.511][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:25.512][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:25.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.515][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.517][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:25.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:25.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:25.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:25.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:25.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:25.599][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-06-09 19:02:25.600][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-06-09 19:02:25.600][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-06-09 19:02:25.619][biodb::testThat]
biodb.INFO [2024-06-09 19:02:25.620][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-06-09 19:02:25.621][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:25.622][biodb::testThat]
biodb.INFO [2024-06-09 19:02:25.653][biodb::testThat]
biodb.INFO [2024-06-09 19:02:25.655][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-06-09 19:02:25.656][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:25.657][biodb::testThat]
biodb.INFO [2024-06-09 19:02:25.672][biodb::testThat]
biodb.INFO [2024-06-09 19:02:25.673][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-06-09 19:02:25.674][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:25.675][biodb::testThat]
biodb.DEBUG[2024-06-09 19:02:25.678][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:25.682][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:25.684][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2024-06-09 19:02:25.685][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:25.688][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2024-06-09 19:02:25.706][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:25.707][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:25.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.710][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:25.711][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.713][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:25.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:25.715][ef$get] fields variable is a list.
biodb.INFO [2024-06-09 19:02:25.717][biodb::testThat]
biodb.INFO [2024-06-09 19:02:25.718][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2024-06-09 19:02:25.718][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:25.720][biodb::testThat]
biodb.ERROR[2024-06-09 19:02:25.737][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-06-09 19:02:25.759][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-06-09 19:02:25.776][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-09 19:02:25.778][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-09 19:02:25.779][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-09 19:02:25.780][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-09 19:02:25.781][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:25.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:25.783][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:25.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:25.785][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-09 19:02:25.797][biodb::testContext]
biodb.INFO [2024-06-09 19:02:25.798][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-09 19:02:25.799][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-06-09 19:02:25.800][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-09 19:02:25.801][biodb::testContext]
biodb.INFO [2024-06-09 19:02:25.803][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-09 19:02:25.804][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-09 19:02:25.810][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:25.811][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-09 19:02:25.813][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-09 19:02:25.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.818][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-09 19:02:25.819][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-09 19:02:25.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.824][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-09 19:02:25.826][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-09 19:02:25.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.830][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-09 19:02:25.831][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-09 19:02:25.832][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-09 19:02:25.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.837][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-09 19:02:25.838][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-09 19:02:25.839][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-09 19:02:25.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.844][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-09 19:02:25.846][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-09 19:02:25.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.851][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-09 19:02:25.852][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-09 19:02:25.854][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-09 19:02:25.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.859][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-09 19:02:25.860][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-09 19:02:25.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.866][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-09 19:02:25.866][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-09 19:02:25.867][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-09 19:02:25.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.871][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-09 19:02:25.871][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-09 19:02:25.872][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-09 19:02:25.873][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-09 19:02:25.874][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-09 19:02:25.875][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-09 19:02:25.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.877][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[2024-06-09 19:02:25.878][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-09 19:02:25.879][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-09 19:02:25.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.882][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-09 19:02:25.883][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-09 19:02:25.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.886][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-09 19:02:25.887][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-09 19:02:25.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.890][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-09 19:02:25.891][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-09 19:02:25.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.894][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[2024-06-09 19:02:25.894][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-09 19:02:25.895][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-09 19:02:25.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.899][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-09 19:02:25.899][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-09 19:02:25.920][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-09 19:02:25.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.924][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[2024-06-09 19:02:25.925][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-09 19:02:25.926][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-09 19:02:25.928][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-09 19:02:25.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:25.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:25.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:25.932][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-09 19:02:25.935][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:25.936][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-09 19:02:25.937][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:25.938][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:25.939][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:25.941][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:25.942][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:25.943][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:25.944][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-09 19:02:25.945][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:25.946][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:25.947][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-09 19:02:25.948][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:25.950][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:25.951][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:25.952][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:25.952][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:25.952][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:25.952][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-09 19:02:25.952][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-09 19:02:25.953][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:25.954][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:25.955][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:25.956][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:25.957][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:25.958][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:25.959][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:25.960][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:25.961][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:25.963][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:25.964][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:25.965][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:25.966][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-09 19:02:25.969][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:25.971][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-09 19:02:25.973][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:25.974][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:25.975][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:25.977][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:25.978][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:25.979][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:25.980][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-09 19:02:25.982][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:25.983][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:25.984][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-09 19:02:25.986][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:25.987][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:25.988][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:25.989][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:25.989][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:25.989][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:25.989][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-09 19:02:25.989][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-09 19:02:25.991][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:25.992][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:25.994][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:25.995][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:25.996][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:25.997][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:25.998][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:25.999][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:26.000][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:26.000][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:26.001][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:26.002][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:26.004][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-09 19:02:26.006][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.008][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-09 19:02:26.009][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.011][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:26.012][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.013][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:26.015][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:26.016][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:26.017][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-09 19:02:26.018][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:26.019][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:26.020][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-09 19:02:26.020][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:26.021][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:26.022][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.023][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:26.024][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:26.025][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:26.026][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:26.027][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:26.029][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:26.030][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:26.031][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:26.033][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:26.034][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:26.035][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:26.036][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:26.063][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:26.065][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-09 19:02:26.067][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.068][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-09 19:02:26.070][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.071][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:26.072][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.074][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:26.075][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:26.076][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:26.078][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-09 19:02:26.079][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:26.080][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:26.081][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-09 19:02:26.082][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:26.083][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:26.084][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.085][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:26.094][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:26.096][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:26.097][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:26.099][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:26.102][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:26.107][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:26.108][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:26.110][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:26.111][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:26.112][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:26.113][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:26.114][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:26.117][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:26.118][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.134][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[2024-06-09 19:02:26.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.172][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[2024-06-09 19:02:26.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.187][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[2024-06-09 19:02:26.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.209][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-09 19:02:26.211][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-09 19:02:26.212][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-09 19:02:26.214][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-09 19:02:26.215][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-09 19:02:26.216][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-09 19:02:26.217][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-09 19:02:26.219][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-09 19:02:26.221][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-09 19:02:26.222][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-09 19:02:26.224][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-09 19:02:26.226][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-09 19:02:26.228][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-09 19:02:26.230][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-09 19:02:26.231][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-09 19:02:26.233][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-09 19:02:26.235][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-09 19:02:26.237][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-09 19:02:26.238][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-09 19:02:26.239][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-09 19:02:26.241][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-09 19:02:26.243][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-09 19:02:26.245][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-09 19:02:26.247][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-09 19:02:26.248][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-09 19:02:26.249][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-09 19:02:26.251][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-09 19:02:26.253][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-09 19:02:26.255][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-09 19:02:26.257][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-09 19:02:26.258][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-09 19:02:26.260][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-09 19:02:26.261][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-09 19:02:26.262][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-09 19:02:26.264][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-09 19:02:26.265][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-09 19:02:26.267][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-09 19:02:26.269][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-09 19:02:26.271][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-09 19:02:26.272][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-09 19:02:26.274][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-09 19:02:26.276][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-09 19:02:26.277][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-09 19:02:26.279][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-09 19:02:26.281][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-09 19:02:26.283][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-09 19:02:26.285][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-09 19:02:26.287][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-09 19:02:26.289][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-09 19:02:26.290][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-09 19:02:26.291][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-09 19:02:26.292][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-09 19:02:26.294][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-09 19:02:26.295][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-09 19:02:26.297][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-09 19:02:26.299][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-09 19:02:26.302][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-09 19:02:26.304][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-09 19:02:26.306][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-09 19:02:26.308][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-09 19:02:26.310][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-09 19:02:26.312][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-09 19:02:26.314][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-09 19:02:26.316][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-09 19:02:26.318][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-09 19:02:26.320][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-09 19:02:26.321][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-09 19:02:26.322][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-09 19:02:26.323][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-09 19:02:26.325][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-09 19:02:26.326][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-09 19:02:26.327][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-09 19:02:26.328][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-09 19:02:26.329][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-09 19:02:26.331][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-09 19:02:26.332][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-09 19:02:26.333][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-09 19:02:26.334][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-09 19:02:26.335][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-09 19:02:26.336][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-09 19:02:26.338][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-09 19:02:26.339][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-09 19:02:26.340][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-09 19:02:26.341][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-09 19:02:26.343][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-09 19:02:26.344][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:26.344][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.346][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.458][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-09 19:02:26.460][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-09 19:02:26.463][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:26.465][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-09 19:02:26.466][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.467][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:26.468][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.469][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:26.470][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.471][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-09 19:02:26.472][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-09 19:02:26.473][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:26.474][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.475][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-09 19:02:26.476][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:26.477][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-09 19:02:26.477][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-09 19:02:26.477][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-09 19:02:26.477][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-09 19:02:26.477][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-09 19:02:26.477][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-09 19:02:26.477][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-09 19:02:26.477][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-09 19:02:26.477][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-09 19:02:26.477][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-09 19:02:26.477][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-09 19:02:26.479][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:26.480][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:26.480][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:26.480][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:26.481][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-09 19:02:26.482][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:26.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:26.485][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:26.486][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:26.486][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:26.488][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:26.489][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-09 19:02:26.489][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-09 19:02:26.490][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:26.491][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:26.492][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:26.493][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-09 19:02:26.493][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-09 19:02:26.494][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-09 19:02:26.495][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-09 19:02:26.497][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-09 19:02:26.498][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-09 19:02:26.499][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-09 19:02:26.500][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-09 19:02:26.503][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-09 19:02:26.504][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-09 19:02:26.505][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-09 19:02:26.506][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-09 19:02:26.507][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-09 19:02:26.508][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-09 19:02:26.509][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-09 19:02:26.510][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-09 19:02:26.511][biodb::testThat]
biodb.INFO [2024-06-09 19:02:26.512][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2024-06-09 19:02:26.513][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:26.513][biodb::testThat]
biodb.DEBUG[2024-06-09 19:02:26.517][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-09 19:02:26.519][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:26.521][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-09 19:02:26.522][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:26.523][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-09 19:02:26.526][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:26.544][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:26.546][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-06-09 19:02:26.548][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:26.551][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-06-09 19:02:26.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:26.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.570][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:26.575][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:26.577][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-06-09 19:02:26.578][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:26.590][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-06-09 19:02:26.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:26.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:26.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.647][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:26.652][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:26.653][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-06-09 19:02:26.655][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:26.657][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-06-09 19:02:26.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:26.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.675][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:26.679][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:26.681][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-06-09 19:02:26.683][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:26.684][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-06-09 19:02:26.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:26.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.697][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[2024-06-09 19:02:26.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:26.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.713][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[2024-06-09 19:02:26.718][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:26.722][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:26.724][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-06-09 19:02:26.726][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:26.728][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-06-09 19:02:26.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:26.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.746][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:26.750][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:26.751][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-06-09 19:02:26.752][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:26.754][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-06-09 19:02:26.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:26.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.772][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:26.775][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:26.777][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2024-06-09 19:02:26.779][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:26.785][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2024-06-09 19:02:26.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:26.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-09 19:02:26.813][biodb::testThat]
biodb.INFO [2024-06-09 19:02:26.814][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2024-06-09 19:02:26.816][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:26.817][biodb::testThat]
biodb.DEBUG[2024-06-09 19:02:26.822][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:26.826][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:26.828][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2024-06-09 19:02:26.830][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:26.840][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2024-06-09 19:02:26.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:26.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.864][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:26.868][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:26.870][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2024-06-09 19:02:26.872][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:26.874][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2024-06-09 19:02:26.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:26.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-09 19:02:26.898][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-09 19:02:26.900][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-09 19:02:26.902][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-09 19:02:26.903][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-09 19:02:26.905][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:26.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:26.907][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:26.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:26.909][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-09 19:02:26.915][biodb::testContext]
biodb.INFO [2024-06-09 19:02:26.916][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-09 19:02:26.918][biodb::testContext] Test context - Test web services
biodb.INFO [2024-06-09 19:02:26.919][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-09 19:02:26.920][biodb::testContext]
biodb.INFO [2024-06-09 19:02:26.923][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-09 19:02:26.925][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-09 19:02:26.931][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:26.932][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-09 19:02:26.933][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-09 19:02:26.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.939][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-09 19:02:26.940][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-09 19:02:26.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.945][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-09 19:02:26.946][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-09 19:02:26.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.951][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-09 19:02:26.953][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-09 19:02:26.954][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-09 19:02:26.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.965][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-09 19:02:26.967][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-09 19:02:26.968][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-09 19:02:26.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.972][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-09 19:02:26.974][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-09 19:02:26.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.977][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.DEBUG[2024-06-09 19:02:26.978][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-09 19:02:26.980][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-09 19:02:26.981][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-09 19:02:26.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.986][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-09 19:02:26.987][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-09 19:02:26.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.991][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[2024-06-09 19:02:26.992][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-09 19:02:26.993][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-09 19:02:26.994][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-09 19:02:26.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:26.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:26.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:26.999][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-09 19:02:27.000][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-09 19:02:27.001][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-09 19:02:27.003][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-09 19:02:27.004][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-09 19:02:27.005][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-09 19:02:27.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.009][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-09 19:02:27.011][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-09 19:02:27.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.015][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-09 19:02:27.016][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-09 19:02:27.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.021][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-09 19:02:27.022][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-09 19:02:27.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.027][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-09 19:02:27.028][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-09 19:02:27.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.033][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-09 19:02:27.034][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-09 19:02:27.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.039][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-09 19:02:27.040][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-09 19:02:27.070][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-09 19:02:27.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.073][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-09 19:02:27.074][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-09 19:02:27.075][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-09 19:02:27.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.078][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-09 19:02:27.080][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.081][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-09 19:02:27.082][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.083][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:27.084][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.085][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.087][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.088][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.089][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-09 19:02:27.091][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:27.092][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.093][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-09 19:02:27.095][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:27.096][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.097][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.099][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:27.099][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:27.099][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:27.099][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-09 19:02:27.099][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-09 19:02:27.100][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:27.101][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.103][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.104][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:27.105][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.106][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.107][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.108][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.108][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:27.110][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:27.111][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.112][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.114][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-09 19:02:27.116][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.117][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-09 19:02:27.118][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.119][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:27.120][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.121][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.122][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.123][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.124][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-09 19:02:27.125][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:27.126][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.128][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-09 19:02:27.129][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:27.131][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.132][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.133][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:27.133][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:27.133][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:27.133][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-09 19:02:27.133][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-09 19:02:27.135][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:27.136][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.138][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.139][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:27.141][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.142][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.143][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.144][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.144][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:27.145][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:27.147][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.148][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.149][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-09 19:02:27.152][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.153][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-09 19:02:27.154][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.156][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:27.157][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.159][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.161][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.162][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.163][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-09 19:02:27.165][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:27.167][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.168][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-09 19:02:27.170][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:27.171][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.172][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.174][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.175][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:27.176][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.177][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.179][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:27.180][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.181][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.183][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.184][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.185][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:27.187][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:27.188][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.189][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.191][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-09 19:02:27.193][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.195][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-09 19:02:27.196][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.197][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:27.198][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.200][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.201][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.202][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.204][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-09 19:02:27.205][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:27.206][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.208][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-09 19:02:27.209][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:27.210][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.212][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.213][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.215][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:27.216][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.217][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.219][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:27.220][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.221][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.223][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.224][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.225][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:27.226][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:27.227][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.228][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.230][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:27.231][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.248][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.DEBUG[2024-06-09 19:02:27.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.298][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[2024-06-09 19:02:27.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.323][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-09 19:02:27.325][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-09 19:02:27.326][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-09 19:02:27.328][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-09 19:02:27.330][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-09 19:02:27.332][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-09 19:02:27.334][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-09 19:02:27.336][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-09 19:02:27.338][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-09 19:02:27.340][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-09 19:02:27.342][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-09 19:02:27.343][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-09 19:02:27.345][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-09 19:02:27.347][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-09 19:02:27.348][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-09 19:02:27.350][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-09 19:02:27.352][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-09 19:02:27.354][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-09 19:02:27.355][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-09 19:02:27.357][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-09 19:02:27.359][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-09 19:02:27.360][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-09 19:02:27.362][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-09 19:02:27.363][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-09 19:02:27.364][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-09 19:02:27.365][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-09 19:02:27.366][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-09 19:02:27.368][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-09 19:02:27.370][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-09 19:02:27.372][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-09 19:02:27.374][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-09 19:02:27.375][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-09 19:02:27.377][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-09 19:02:27.379][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-09 19:02:27.381][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-09 19:02:27.383][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-09 19:02:27.385][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-09 19:02:27.393][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-09 19:02:27.394][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-09 19:02:27.396][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-09 19:02:27.398][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-09 19:02:27.400][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-09 19:02:27.402][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-09 19:02:27.404][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-09 19:02:27.405][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-09 19:02:27.406][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-09 19:02:27.408][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-09 19:02:27.409][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-09 19:02:27.410][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-09 19:02:27.411][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-09 19:02:27.412][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-09 19:02:27.414][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-09 19:02:27.415][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-09 19:02:27.416][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-09 19:02:27.417][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-09 19:02:27.418][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-09 19:02:27.419][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-09 19:02:27.420][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-09 19:02:27.422][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-09 19:02:27.423][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-09 19:02:27.424][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-09 19:02:27.425][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-09 19:02:27.426][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-09 19:02:27.428][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-09 19:02:27.430][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-09 19:02:27.431][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-09 19:02:27.432][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-09 19:02:27.433][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-09 19:02:27.435][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-09 19:02:27.437][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-09 19:02:27.439][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-09 19:02:27.440][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-09 19:02:27.442][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-09 19:02:27.443][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-09 19:02:27.445][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-09 19:02:27.447][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-09 19:02:27.449][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-09 19:02:27.451][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-09 19:02:27.453][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-09 19:02:27.454][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-09 19:02:27.455][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-09 19:02:27.457][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-09 19:02:27.458][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-09 19:02:27.460][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-09 19:02:27.462][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-09 19:02:27.464][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:27.465][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.466][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.516][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[2024-06-09 19:02:27.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.597][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-09 19:02:27.599][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-09 19:02:27.602][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.603][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.605][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.606][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:27.607][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.608][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.610][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.611][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-09 19:02:27.612][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-09 19:02:27.614][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:27.615][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.616][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-09 19:02:27.617][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:27.618][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-09 19:02:27.618][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-09 19:02:27.618][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-09 19:02:27.618][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-09 19:02:27.618][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-09 19:02:27.618][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-09 19:02:27.618][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-09 19:02:27.618][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-09 19:02:27.618][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-09 19:02:27.618][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-09 19:02:27.618][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-09 19:02:27.619][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.621][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:27.621][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:27.621][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:27.622][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-09 19:02:27.624][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.625][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.626][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:27.628][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.629][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.630][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.631][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-09 19:02:27.631][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-09 19:02:27.632][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:27.634][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:27.635][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.636][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-09 19:02:27.636][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-09 19:02:27.638][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-09 19:02:27.640][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-09 19:02:27.642][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-09 19:02:27.644][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-09 19:02:27.647][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-09 19:02:27.649][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-09 19:02:27.654][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-09 19:02:27.656][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-09 19:02:27.657][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-09 19:02:27.659][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-09 19:02:27.660][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-09 19:02:27.661][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-09 19:02:27.662][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-09 19:02:27.663][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-09 19:02:27.664][biodb::testThat]
biodb.INFO [2024-06-09 19:02:27.665][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-06-09 19:02:27.667][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:27.668][biodb::testThat]
biodb.DEBUG[2024-06-09 19:02:27.672][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-09 19:02:27.675][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:27.676][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-09 19:02:27.677][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:27.679][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-09 19:02:27.682][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:27.685][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:27.687][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-06-09 19:02:27.688][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:27.696][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2024-06-09 19:02:27.708][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-09 19:02:27.710][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-09 19:02:27.711][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-09 19:02:27.713][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-09 19:02:27.714][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:27.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:27.716][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:27.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:27.719][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.720][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.INFO [2024-06-09 19:02:27.723][biodb::testContext]
biodb.INFO [2024-06-09 19:02:27.724][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-09 19:02:27.725][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-06-09 19:02:27.726][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-09 19:02:27.727][biodb::testContext]
biodb.INFO [2024-06-09 19:02:27.729][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-09 19:02:27.730][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-09 19:02:27.734][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:27.736][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-09 19:02:27.737][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-09 19:02:27.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.741][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-09 19:02:27.743][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-09 19:02:27.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.748][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-09 19:02:27.749][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-09 19:02:27.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.753][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-09 19:02:27.754][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-09 19:02:27.755][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-09 19:02:27.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.757][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[2024-06-09 19:02:27.758][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-09 19:02:27.759][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-09 19:02:27.759][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-09 19:02:27.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.762][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-09 19:02:27.763][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-09 19:02:27.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.766][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-09 19:02:27.767][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-09 19:02:27.768][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-09 19:02:27.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.771][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-09 19:02:27.772][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-09 19:02:27.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.781][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-09 19:02:27.782][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-09 19:02:27.784][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-09 19:02:27.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.788][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-09 19:02:27.789][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-09 19:02:27.790][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-09 19:02:27.790][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-09 19:02:27.791][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-09 19:02:27.792][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-09 19:02:27.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.796][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-09 19:02:27.797][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-09 19:02:27.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.801][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-09 19:02:27.803][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-09 19:02:27.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.807][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-09 19:02:27.809][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-09 19:02:27.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.813][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-09 19:02:27.814][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-09 19:02:27.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.819][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-09 19:02:27.820][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-09 19:02:27.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.825][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-09 19:02:27.826][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-09 19:02:27.849][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-09 19:02:27.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.854][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-09 19:02:27.855][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-09 19:02:27.856][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-09 19:02:27.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:27.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:27.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:27.861][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-09 19:02:27.862][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.863][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-09 19:02:27.864][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.865][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:27.866][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.866][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.868][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.869][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.870][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-09 19:02:27.872][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:27.873][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.874][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-09 19:02:27.875][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:27.876][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.877][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.879][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:27.879][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:27.879][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:27.879][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-09 19:02:27.879][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-09 19:02:27.880][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:27.881][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.883][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.884][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:27.886][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.887][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.888][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.889][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.891][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:27.892][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:27.893][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.894][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.895][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-09 19:02:27.898][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.899][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-09 19:02:27.900][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.901][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:27.903][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.904][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.905][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.906][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.907][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-09 19:02:27.908][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:27.910][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.911][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-09 19:02:27.912][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:27.913][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.914][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.916][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:27.916][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:27.916][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:27.916][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-09 19:02:27.916][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-09 19:02:27.917][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:27.918][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.919][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.920][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:27.922][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.923][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.924][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.925][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:27.926][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:27.927][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.928][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.929][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-09 19:02:27.931][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.933][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-09 19:02:27.934][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.935][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:27.936][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.937][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.939][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.940][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.941][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-09 19:02:27.942][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:27.944][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.945][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-09 19:02:27.947][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:27.948][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.949][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.951][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.952][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:27.953][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.954][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.956][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:27.957][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.958][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.959][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.961][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.962][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:27.963][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:27.965][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.966][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.968][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-09 19:02:27.970][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.971][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-09 19:02:27.973][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.974][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:27.975][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.976][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.977][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.978][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.979][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-09 19:02:27.981][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:27.982][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:27.984][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-09 19:02:27.985][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:27.986][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.988][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:27.989][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.991][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-09 19:02:27.992][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.993][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.994][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:27.995][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:27.995][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:27.996][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:27.997][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:27.998][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:27.999][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:28.000][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:28.000][self$setPropertyValue]
biodb.DEBUG[2024-06-09 19:02:28.002][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:28.002][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.007][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[2024-06-09 19:02:28.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.048][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[2024-06-09 19:02:28.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.065][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[2024-06-09 19:02:28.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.079][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[2024-06-09 19:02:28.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.086][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-09 19:02:28.088][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-09 19:02:28.090][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-09 19:02:28.092][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-09 19:02:28.094][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-09 19:02:28.096][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-09 19:02:28.098][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-09 19:02:28.100][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-09 19:02:28.101][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-09 19:02:28.103][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-09 19:02:28.104][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-09 19:02:28.106][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-09 19:02:28.108][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-09 19:02:28.109][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-09 19:02:28.110][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-09 19:02:28.111][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-09 19:02:28.112][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-09 19:02:28.114][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-09 19:02:28.115][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-09 19:02:28.117][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-09 19:02:28.118][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-09 19:02:28.120][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-09 19:02:28.122][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-09 19:02:28.124][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-09 19:02:28.126][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-09 19:02:28.128][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-09 19:02:28.129][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-09 19:02:28.130][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-09 19:02:28.132][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-09 19:02:28.134][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-09 19:02:28.136][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-09 19:02:28.158][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-09 19:02:28.161][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-09 19:02:28.163][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-09 19:02:28.165][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-09 19:02:28.167][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-09 19:02:28.169][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-09 19:02:28.171][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-09 19:02:28.173][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-09 19:02:28.175][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-09 19:02:28.177][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-09 19:02:28.179][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-09 19:02:28.181][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-09 19:02:28.183][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-09 19:02:28.185][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-09 19:02:28.186][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-09 19:02:28.187][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-09 19:02:28.189][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-09 19:02:28.191][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-09 19:02:28.192][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-09 19:02:28.194][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-09 19:02:28.204][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-09 19:02:28.205][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-09 19:02:28.207][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-09 19:02:28.209][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-09 19:02:28.211][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-09 19:02:28.215][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-09 19:02:28.217][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-09 19:02:28.219][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-09 19:02:28.220][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-09 19:02:28.221][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-09 19:02:28.223][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-09 19:02:28.225][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-09 19:02:28.226][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-09 19:02:28.228][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-09 19:02:28.230][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-09 19:02:28.232][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-09 19:02:28.233][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-09 19:02:28.234][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-09 19:02:28.236][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-09 19:02:28.238][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-09 19:02:28.239][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-09 19:02:28.241][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-09 19:02:28.243][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-09 19:02:28.244][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-09 19:02:28.245][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-09 19:02:28.246][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-09 19:02:28.248][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-09 19:02:28.249][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-09 19:02:28.251][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-09 19:02:28.253][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-09 19:02:28.255][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-09 19:02:28.257][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-09 19:02:28.259][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-09 19:02:28.261][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-09 19:02:28.262][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-09 19:02:28.263][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.265][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.367][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.DEBUG[2024-06-09 19:02:28.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-09 19:02:28.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-09 19:02:28.393][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-09 19:02:28.394][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-09 19:02:28.396][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:28.398][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-09 19:02:28.399][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:28.400][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-09 19:02:28.401][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:28.403][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-09 19:02:28.404][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:28.405][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-09 19:02:28.407][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-09 19:02:28.408][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-09 19:02:28.410][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:28.412][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-09 19:02:28.413][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-09 19:02:28.415][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-09 19:02:28.415][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-09 19:02:28.415][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-09 19:02:28.415][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-09 19:02:28.415][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-09 19:02:28.415][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-09 19:02:28.415][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-09 19:02:28.415][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-09 19:02:28.415][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-09 19:02:28.415][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-09 19:02:28.415][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-09 19:02:28.417][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-09 19:02:28.418][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-09 19:02:28.418][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-09 19:02:28.418][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-09 19:02:28.419][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-09 19:02:28.421][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:28.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:28.423][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-09 19:02:28.424][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-09 19:02:28.425][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-09 19:02:28.426][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-09 19:02:28.427][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-09 19:02:28.427][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-09 19:02:28.428][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-09 19:02:28.429][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-09 19:02:28.429][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-09 19:02:28.430][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-09 19:02:28.430][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-09 19:02:28.431][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-09 19:02:28.433][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-09 19:02:28.435][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-09 19:02:28.436][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-09 19:02:28.438][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-09 19:02:28.440][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-09 19:02:28.444][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-09 19:02:28.445][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-09 19:02:28.447][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-09 19:02:28.449][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-09 19:02:28.450][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-09 19:02:28.451][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-09 19:02:28.453][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-09 19:02:28.454][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-09 19:02:28.456][biodb::testThat]
biodb.INFO [2024-06-09 19:02:28.458][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-06-09 19:02:28.459][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-09 19:02:28.460][biodb::testThat]
biodb.DEBUG[2024-06-09 19:02:28.465][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-09 19:02:28.469][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:28.471][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-09 19:02:28.473][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:28.475][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-09 19:02:28.479][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-09 19:02:28.482][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-09 19:02:28.484][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-06-09 19:02:28.485][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:28.486][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-06-09 19:02:28.490][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-06-09 19:02:28.498][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-09 19:02:28.501][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-06-09 19:02:28.508][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-09 19:02:28.519][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2024-06-09 19:02:28.521][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-09 19:02:28.523][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-09 19:02:28.524][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-09 19:02:28.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-09 19:02:28.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-09 19:02:28.616][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:28.618][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:28.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.621][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:28.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:28.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.628][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:28.630][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:28.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.633][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.635][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-09 19:02:28.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-09 19:02:28.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.640][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:28.641][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:28.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.644][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.645][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-09 19:02:28.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-09 19:02:28.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.650][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-09 19:02:28.651][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-09 19:02:28.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.653][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.655][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-09 19:02:28.656][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-09 19:02:28.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.658][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.660][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:28.661][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:28.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.664][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.665][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:28.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-09 19:02:28.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.671][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:28.673][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:28.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.675][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.677][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-09 19:02:28.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-09 19:02:28.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.681][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:28.683][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:28.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.685][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:28.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-09 19:02:28.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.691][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:28.693][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:28.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.695][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.697][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-09 19:02:28.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-09 19:02:28.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.711][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:28.712][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:28.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.715][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.717][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-09 19:02:28.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-09 19:02:28.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.722][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:28.723][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:28.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.725][ef$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.727][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-09 19:02:28.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-09 19:02:28.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:28.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:28.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:28.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:28.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:28.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:28.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-09 19:02:28.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-09 19:02:28.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:28.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:28.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:28.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:28.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:28.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:28.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:28.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:28.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:28.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:28.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-09 19:02:28.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-09 19:02:28.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-09 19:02:28.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-09 19:02:28.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-09 19:02:28.796][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-06-09 19:02:28.802][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-09 19:02:28.804][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-09 19:02:28.805][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-09 19:02:28.807][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-09 19:02:28.808][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-09 19:02:28.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-09 19:02:28.810][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-09 19:02:28.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-09 19:02:28.812][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-09 19:02:28.813][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 358 ]
> 
> proc.time()
   user  system elapsed 
 17.664   0.977  21.988

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn2.5680.9154.769
ChebiEntry0.4350.0160.572