Back to Multiple platform build/check report for BioC 3.20:   simplified   long
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2025-01-02 12:03 -0500 (Thu, 02 Jan 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4744
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4487
merida1macOS 12.7.5 Montereyx86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4515
kjohnson1macOS 13.6.6 Venturaarm644.4.2 (2024-10-31) -- "Pile of Leaves" 4467
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 202/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.12.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-12-30 13:00 -0500 (Mon, 30 Dec 2024)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_20
git_last_commit: e6b963e
git_last_commit_date: 2024-10-29 11:04:35 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for biodbChebi on nebbiolo2

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: 1.12.0
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings biodbChebi_1.12.0.tar.gz
StartedAt: 2024-12-30 20:06:45 -0500 (Mon, 30 Dec 2024)
EndedAt: 2024-12-30 20:07:52 -0500 (Mon, 30 Dec 2024)
EllapsedTime: 67.1 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings biodbChebi_1.12.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/biodbChebi.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
    GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.12.0’
* 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 loading without being on the library search path ... 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-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 4.4.2 (2024-10-31) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2024-12-30 20:07:27.450][biodb::testContext]
biodb.INFO [2024-12-30 20:07:27.452][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-30 20:07:27.453][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-12-30 20:07:27.454][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-30 20:07:27.455][biodb::testContext]
biodb.INFO [2024-12-30 20:07:27.462][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-12-30 20:07:27.464][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-12-30 20:07:27.472][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:27.474][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-12-30 20:07:27.475][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-12-30 20:07:27.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.479][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-12-30 20:07:27.501][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-12-30 20:07:27.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.506][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-12-30 20:07:27.507][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-12-30 20:07:27.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.511][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-12-30 20:07:27.512][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-12-30 20:07:27.513][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-12-30 20:07:27.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.516][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[2024-12-30 20:07:27.517][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-12-30 20:07:27.518][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-12-30 20:07:27.520][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-12-30 20:07:27.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.524][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-12-30 20:07:27.525][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-12-30 20:07:27.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.529][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-12-30 20:07:27.530][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-12-30 20:07:27.531][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-12-30 20:07:27.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.535][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-12-30 20:07:27.537][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-12-30 20:07:27.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.541][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-12-30 20:07:27.542][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-12-30 20:07:27.543][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-12-30 20:07:27.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.547][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-12-30 20:07:27.548][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-12-30 20:07:27.549][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-12-30 20:07:27.550][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-12-30 20:07:27.552][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-12-30 20:07:27.553][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-12-30 20:07:27.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.556][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[2024-12-30 20:07:27.557][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-12-30 20:07:27.558][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-12-30 20:07:27.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.574][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-12-30 20:07:27.576][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-12-30 20:07:27.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.581][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-12-30 20:07:27.582][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-12-30 20:07:27.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.587][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-12-30 20:07:27.588][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-12-30 20:07:27.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.592][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-12-30 20:07:27.593][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-12-30 20:07:27.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.597][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-12-30 20:07:27.599][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-12-30 20:07:27.605][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-12-30 20:07:27.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.608][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[2024-12-30 20:07:27.609][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-12-30 20:07:27.610][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-12-30 20:07:27.612][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-12-30 20:07:27.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.620][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-12-30 20:07:27.661][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.679][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-12-30 20:07:27.681][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.682][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:27.683][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.684][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.715][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.716][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.717][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-30 20:07:27.718][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:27.720][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.721][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-12-30 20:07:27.722][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:27.723][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.725][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.726][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:27.726][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:27.726][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:27.726][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-30 20:07:27.726][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-30 20:07:27.727][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:27.729][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:27.730][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:27.731][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:27.732][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:27.733][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:27.735][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.736][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.738][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:27.739][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:27.740][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.741][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.743][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-12-30 20:07:27.745][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.746][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-12-30 20:07:27.748][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.749][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:27.750][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.751][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.752][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.753][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.754][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-30 20:07:27.756][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:27.757][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.758][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-12-30 20:07:27.759][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:27.760][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.761][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.763][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:27.763][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:27.763][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:27.763][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-30 20:07:27.763][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-30 20:07:27.764][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:27.765][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:27.766][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:27.767][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:27.768][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:27.769][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:27.770][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.771][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.772][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:27.773][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:27.774][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.775][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.776][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-12-30 20:07:27.778][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.779][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-12-30 20:07:27.780][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.781][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:27.782][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.783][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.784][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.785][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.786][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-30 20:07:27.787][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:27.789][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.789][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-12-30 20:07:27.790][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:27.791][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.792][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.793][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.794][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:27.795][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:27.796][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:27.797][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:27.798][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:27.799][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:27.800][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.801][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.802][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:27.803][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:27.804][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.805][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.806][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-12-30 20:07:27.808][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.809][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-12-30 20:07:27.810][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.811][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:27.812][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.813][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.814][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.815][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.816][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-30 20:07:27.817][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:27.818][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.819][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-12-30 20:07:27.820][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:27.821][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.822][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:27.823][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.824][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:27.825][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:27.826][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:27.827][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:27.828][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:27.829][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:27.830][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:27.831][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.832][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:27.833][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:27.834][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:27.835][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:27.839][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:27.840][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.858][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[2024-12-30 20:07:27.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.872][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[2024-12-30 20:07:27.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.881][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[2024-12-30 20:07:27.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.885][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[2024-12-30 20:07:27.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.890][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.DEBUG[2024-12-30 20:07:27.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.894][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[2024-12-30 20:07:27.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.898][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[2024-12-30 20:07:27.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:27.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:27.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:27.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:27.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:27.916][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-12-30 20:07:27.921][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-12-30 20:07:27.922][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-12-30 20:07:27.923][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-12-30 20:07:27.925][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-30 20:07:27.926][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-30 20:07:27.927][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-12-30 20:07:27.929][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-12-30 20:07:27.930][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-12-30 20:07:27.931][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-30 20:07:27.933][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-30 20:07:27.934][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-12-30 20:07:27.935][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-12-30 20:07:27.937][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-12-30 20:07:27.938][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-12-30 20:07:27.939][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-30 20:07:27.940][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-12-30 20:07:27.942][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-12-30 20:07:27.943][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-30 20:07:27.944][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-12-30 20:07:27.946][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-12-30 20:07:27.947][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-12-30 20:07:27.948][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-12-30 20:07:27.950][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-12-30 20:07:27.951][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-12-30 20:07:27.952][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-12-30 20:07:27.954][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-12-30 20:07:27.955][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-12-30 20:07:27.956][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-12-30 20:07:27.958][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-12-30 20:07:27.959][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-12-30 20:07:27.960][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-12-30 20:07:27.962][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-12-30 20:07:27.963][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-12-30 20:07:27.964][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-12-30 20:07:27.965][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-12-30 20:07:27.967][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-12-30 20:07:27.968][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-12-30 20:07:27.969][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-12-30 20:07:27.971][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-12-30 20:07:27.972][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-12-30 20:07:27.973][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-12-30 20:07:27.974][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-12-30 20:07:27.976][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-12-30 20:07:27.977][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-12-30 20:07:27.978][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-12-30 20:07:27.980][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-12-30 20:07:27.981][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-12-30 20:07:27.982][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-12-30 20:07:27.988][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-12-30 20:07:27.990][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-12-30 20:07:27.991][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-12-30 20:07:27.992][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-12-30 20:07:27.993][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-12-30 20:07:27.995][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-12-30 20:07:27.996][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-12-30 20:07:27.997][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-12-30 20:07:27.998][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-12-30 20:07:28.000][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-12-30 20:07:28.001][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-12-30 20:07:28.002][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-12-30 20:07:28.003][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-12-30 20:07:28.005][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-12-30 20:07:28.006][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-12-30 20:07:28.007][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-12-30 20:07:28.008][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-12-30 20:07:28.010][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-30 20:07:28.011][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-30 20:07:28.012][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-12-30 20:07:28.014][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-12-30 20:07:28.015][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-12-30 20:07:28.016][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-12-30 20:07:28.018][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-12-30 20:07:28.019][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-12-30 20:07:28.020][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-12-30 20:07:28.022][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-12-30 20:07:28.023][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-12-30 20:07:28.024][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-12-30 20:07:28.025][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-12-30 20:07:28.027][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-12-30 20:07:28.028][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-12-30 20:07:28.029][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-12-30 20:07:28.031][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-12-30 20:07:28.036][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-12-30 20:07:28.038][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-12-30 20:07:28.041][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:28.042][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.043][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:28.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.054][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[2024-12-30 20:07:28.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.060][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[2024-12-30 20:07:28.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.065][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[2024-12-30 20:07:28.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:28.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.077][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[2024-12-30 20:07:28.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:28.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:28.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:28.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.099][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.DEBUG[2024-12-30 20:07:28.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:28.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:28.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.116][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[2024-12-30 20:07:28.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:28.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:28.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:28.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.139][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[2024-12-30 20:07:28.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:28.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.144][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[2024-12-30 20:07:28.146][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-12-30 20:07:28.155][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-12-30 20:07:28.157][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:28.158][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-12-30 20:07:28.159][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:28.160][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:28.161][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:28.162][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:28.163][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:28.164][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-12-30 20:07:28.164][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-12-30 20:07:28.165][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:28.166][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:28.167][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-12-30 20:07:28.168][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:28.169][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-12-30 20:07:28.169][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-12-30 20:07:28.169][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-12-30 20:07:28.169][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-12-30 20:07:28.169][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-12-30 20:07:28.169][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-12-30 20:07:28.169][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-12-30 20:07:28.169][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-12-30 20:07:28.169][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-12-30 20:07:28.169][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-12-30 20:07:28.169][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-12-30 20:07:28.170][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:28.171][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:28.171][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:28.171][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:28.172][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-12-30 20:07:28.173][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:28.174][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:28.175][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:28.175][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:28.176][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:28.177][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:28.178][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-30 20:07:28.178][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-12-30 20:07:28.179][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:28.180][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:28.181][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:28.182][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-12-30 20:07:28.182][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-12-30 20:07:28.187][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-30 20:07:28.189][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-30 20:07:28.190][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-12-30 20:07:28.192][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-30 20:07:28.193][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-30 20:07:28.194][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-30 20:07:28.217][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-12-30 20:07:28.218][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-12-30 20:07:28.222][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-12-30 20:07:28.226][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-12-30 20:07:28.230][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-30 20:07:28.231][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-30 20:07:28.232][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-12-30 20:07:28.233][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-12-30 20:07:28.250][biodb::testThat]
biodb.INFO [2024-12-30 20:07:28.251][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-12-30 20:07:28.252][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:28.253][biodb::testThat]
biodb.TRACE[2024-12-30 20:07:28.256][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-12-30 20:07:28.258][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:28.261][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:28.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:28.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:28.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:28.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:28.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:28.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:28.286][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[2024-12-30 20:07:28.294][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.295][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.297][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.314][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:28.315][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:28.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.316][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.341][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:28.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:28.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.346][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:28.347][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:28.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.348][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.350][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:28.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:28.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.353][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:28.354][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:28.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.356][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:28.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:28.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.361][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.362][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.364][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.365][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.368][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.369][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.371][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.372][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.376][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:28.377][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.379][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.380][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:28.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.384][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.385][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.386][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.391][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:28.392][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:28.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.394][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.395][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:28.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:28.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.399][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:28.400][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.402][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.403][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:28.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.407][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:28.407][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:28.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.409][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.410][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:28.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:28.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:28.489][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-12-30 20:07:28.492][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:28.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:28.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:28.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:28.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.536][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-30 20:07:28.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-30 20:07:28.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.540][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-30 20:07:28.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-30 20:07:28.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.543][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-12-30 20:07:28.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-12-30 20:07:28.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.547][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-12-30 20:07:28.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-12-30 20:07:28.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.640][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.641][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.643][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.666][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.667][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.668][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.669][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:28.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.681][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:28.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:28.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.685][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:28.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:28.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.714][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:28.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:28.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.718][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:28.719][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:28.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.721][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:28.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:28.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.732][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:28.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:28.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.736][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:28.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:28.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.740][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:28.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:28.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.744][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:28.745][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:28.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.746][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.747][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:28.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:28.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.769][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.770][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.771][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:28.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.794][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.795][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.797][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:28.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.808][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:28.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:28.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.812][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:28.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:28.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.816][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:28.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:28.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.820][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:28.821][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:28.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.822][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.823][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:28.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:28.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.834][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.837][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.841][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.845][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.846][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.847][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.848][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:28.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.859][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.862][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.866][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.870][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.871][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.872][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.873][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:28.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.884][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:28.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:28.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.888][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:28.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:28.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.891][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:28.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:28.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:28.896][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:28.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.898][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.899][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:28.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:28.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.921][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.922][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.923][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:28.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:28.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:28.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:28.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:28.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:28.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.952][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:28.953][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:28.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.954][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.955][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:28.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:28.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.967][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:28.968][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:28.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.970][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.974][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:28.975][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:28.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.976][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.980][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:28.981][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:28.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.983][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.987][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:28.988][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:28.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.990][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:28.994][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.995][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:28.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:28.996][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.001][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:29.001][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:29.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.003][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.007][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.008][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.010][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.014][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:29.015][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:29.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.017][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.021][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-30 20:07:29.022][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:29.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.024][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.028][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:29.029][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:29.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.030][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.034][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:29.035][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:29.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.037][ef$get] fields variable is a list.
biodb.INFO [2024-12-30 20:07:29.044][biodb::testThat]
biodb.INFO [2024-12-30 20:07:29.044][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-12-30 20:07:29.045][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:29.046][biodb::testThat]
biodb.DEBUG[2024-12-30 20:07:29.059][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-12-30 20:07:29.066][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:29.070][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-12-30 20:07:29.071][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:29.073][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-12-30 20:07:29.074][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:29.096][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:29.097][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:29.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:29.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:29.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:29.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:29.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:29.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:29.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:29.109][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:29.110][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:29.111][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.112][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:29.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:29.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.132][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:29.138][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:29.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.140][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.141][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:29.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:29.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.145][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:29.146][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:29.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.148][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.149][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:29.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:29.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.153][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:29.154][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:29.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.155][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:29.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:29.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.160][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.161][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.163][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.168][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:29.169][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:29.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.170][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.172][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:29.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:29.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.175][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:29.176][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.178][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.179][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:29.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.183][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:29.184][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:29.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.185][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:29.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:29.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.190][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:29.191][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:29.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.193][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:29.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:29.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.198][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:29.199][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:29.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.200][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.202][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:29.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:29.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.205][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:29.206][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:29.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.208][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.209][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:29.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:29.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:29.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:29.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:29.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:29.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:29.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:29.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:29.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:29.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:29.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:29.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:29.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:29.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:29.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:29.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:29.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:29.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:29.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:29.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:29.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:29.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:29.248][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-12-30 20:07:29.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-12-30 20:07:29.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-12-30 20:07:29.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-12-30 20:07:29.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-12-30 20:07:29.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-12-30 20:07:29.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-12-30 20:07:29.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-30 20:07:29.266][biodb::testThat]
biodb.INFO [2024-12-30 20:07:29.267][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-12-30 20:07:29.268][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:29.269][biodb::testThat]
biodb.TRACE[2024-12-30 20:07:29.272][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:29.273][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:29.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.275][ef$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:29.276][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-12-30 20:07:29.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:29.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:29.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:29.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:29.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.310][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:29.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:29.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:29.317][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-12-30 20:07:29.322][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-12-30 20:07:29.344][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:29.378][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-12-30 20:07:29.380][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:29.382][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-12-30 20:07:29.421][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[2024-12-30 20:07:29.427][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:29.430][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-30 20:07:29.431][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:29.434][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-12-30 20:07:29.436][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-12-30 20:07:29.454][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:29.455][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:29.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.457][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.458][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.459][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.461][ef$get] fields variable is a list.
biodb.INFO [2024-12-30 20:07:29.464][biodb::testThat]
biodb.INFO [2024-12-30 20:07:29.465][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-12-30 20:07:29.466][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:29.467][biodb::testThat]
biodb.TRACE[2024-12-30 20:07:29.489][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:29.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:29.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.493][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:29.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:29.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.497][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:29.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:29.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:29.551][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[2024-12-30 20:07:29.554][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:29.556][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-30 20:07:29.557][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:29.558][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-12-30 20:07:29.572][biodb::testThat]
biodb.INFO [2024-12-30 20:07:29.573][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-12-30 20:07:29.574][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:29.575][biodb::testThat]
biodb.TRACE[2024-12-30 20:07:29.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:29.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:29.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:29.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:29.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.619][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-30 20:07:29.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-30 20:07:29.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.622][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-30 20:07:29.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-30 20:07:29.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.626][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-12-30 20:07:29.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-12-30 20:07:29.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.630][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-12-30 20:07:29.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-12-30 20:07:29.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:29.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:29.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.654][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:29.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:29.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.661][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:29.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:29.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.672][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-30 20:07:29.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-30 20:07:29.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.675][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-30 20:07:29.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-30 20:07:29.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.679][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-12-30 20:07:29.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-12-30 20:07:29.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:29.683][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-12-30 20:07:29.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-12-30 20:07:29.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:29.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-30 20:07:29.691][biodb::testThat]
biodb.INFO [2024-12-30 20:07:29.692][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-12-30 20:07:29.693][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:29.694][biodb::testThat]
biodb.INFO [2024-12-30 20:07:29.701][biodb::testThat]
biodb.INFO [2024-12-30 20:07:29.702][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-12-30 20:07:29.702][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:29.703][biodb::testThat]
biodb.INFO [2024-12-30 20:07:29.710][biodb::testThat]
biodb.INFO [2024-12-30 20:07:29.711][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-12-30 20:07:29.712][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:29.713][biodb::testThat]
biodb.DEBUG[2024-12-30 20:07:29.716][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-12-30 20:07:30.832][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-12-30 20:07:32.152][biodb::testThat]
biodb.INFO [2024-12-30 20:07:32.155][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-12-30 20:07:32.157][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:32.159][biodb::testThat]
biodb.DEBUG[2024-12-30 20:07:32.612][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[2024-12-30 20:07:33.061][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:33.064][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:33.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.068][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.070][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.073][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.077][ef$get] fields variable is a list.
biodb.INFO [2024-12-30 20:07:33.081][biodb::testThat]
biodb.INFO [2024-12-30 20:07:33.083][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-12-30 20:07:33.085][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:33.087][biodb::testThat]
biodb.TRACE[2024-12-30 20:07:33.107][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:33.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:33.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.113][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:33.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:33.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.119][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:33.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:33.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:33.197][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[2024-12-30 20:07:33.200][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:33.201][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-30 20:07:33.202][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:33.204][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-12-30 20:07:33.274][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[2024-12-30 20:07:33.277][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:33.278][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-30 20:07:33.280][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:33.281][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-12-30 20:07:33.293][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-30 20:07:33.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-30 20:07:33.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:33.325][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[2024-12-30 20:07:33.327][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:33.329][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-12-30 20:07:33.330][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:33.331][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-12-30 20:07:33.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:33.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:33.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:33.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:33.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:33.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:33.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:33.343][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-12-30 20:07:33.391][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:33.393][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-12-30 20:07:33.394][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:33.396][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2024-12-30 20:07:33.397][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:33.398][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:33.399][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:33.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:33.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:33.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:33.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:33.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:33.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:33.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:33.411][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.412][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.414][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.418][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:33.419][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:33.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.421][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.422][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:33.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:33.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.426][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:33.427][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:33.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.429][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.430][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:33.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:33.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.434][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:33.435][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:33.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.437][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:33.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:33.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.442][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:33.442][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:33.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.444][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:33.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:33.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.449][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:33.450][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:33.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.452][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.453][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:33.454][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.456][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.457][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:33.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.460][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.461][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.463][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.468][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:33.469][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:33.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.471][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:33.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:33.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.476][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:33.477][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:33.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.478][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.479][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:33.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:33.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.483][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:33.484][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:33.485][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.486][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.487][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:33.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:33.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:33.564][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-12-30 20:07:33.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:33.584][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[2024-12-30 20:07:33.587][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:33.589][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-12-30 20:07:33.590][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:33.591][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-12-30 20:07:33.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:33.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:33.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:33.612][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:33.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:33.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:33.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:33.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:33.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:33.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:33.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:33.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:33.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:33.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:33.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:33.636][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-12-30 20:07:33.637][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:33.639][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-12-30 20:07:33.640][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:33.642][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2024-12-30 20:07:33.643][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:33.644][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:33.645][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:33.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:33.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:33.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:33.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:33.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:33.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:33.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:33.657][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.658][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.660][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.665][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:33.666][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:33.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.668][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.675][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:33.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:33.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.682][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:33.683][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:33.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.685][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.687][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:33.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:33.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.692][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:33.693][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:33.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.695][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.696][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:33.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:33.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.701][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:33.702][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:33.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.704][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:33.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:33.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.710][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:33.711][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:33.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.713][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.714][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:33.716][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.718][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.719][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:33.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.723][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.724][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.726][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.732][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:33.733][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:33.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.735][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.737][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:33.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:33.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.757][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:33.759][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:33.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.761][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.763][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:33.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:33.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.767][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:33.768][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:33.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.770][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.771][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:33.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:33.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:33.816][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-12-30 20:07:33.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:33.847][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[2024-12-30 20:07:33.850][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:33.852][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-30 20:07:33.853][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:33.854][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-12-30 20:07:33.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:33.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:33.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:33.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:33.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:33.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:33.867][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:33.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:33.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:33.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:33.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:33.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:33.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:33.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:33.889][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[2024-12-30 20:07:33.890][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-12-30 20:07:33.891][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:33.893][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-12-30 20:07:33.894][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:33.896][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2024-12-30 20:07:33.897][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:33.898][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:33.899][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:33.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:33.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:33.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:33.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:33.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:33.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:33.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:33.911][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.913][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.914][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.919][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:33.920][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:33.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.922][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.923][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:33.924][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:33.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.926][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.927][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:33.928][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:33.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.930][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.931][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:33.932][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:33.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.934][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.935][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:33.936][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:33.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.938][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.939][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:33.940][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:33.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.942][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.943][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.944][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:33.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.951][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.952][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:33.953][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:33.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.955][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.956][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:33.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:33.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.960][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:33.961][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:33.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.962][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.963][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:33.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:33.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.967][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:33.968][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:33.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.970][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:33.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:33.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:33.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:33.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:33.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.008][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-12-30 20:07:34.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:34.037][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-12-30 20:07:34.038][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:34.039][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-12-30 20:07:34.041][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:34.042][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2024-12-30 20:07:34.043][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:34.044][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:34.045][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:34.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:34.057][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.059][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.060][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.065][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:34.066][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:34.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.068][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.069][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:34.070][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:34.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.072][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.073][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:34.074][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:34.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.076][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.077][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.078][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.080][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.081][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.082][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.084][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.085][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:34.086][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.088][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.089][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.090][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.092][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.093][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.094][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.095][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.097][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.101][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.102][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.103][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.105][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.108][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:34.109][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:34.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.111][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.153][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-12-30 20:07:34.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.181][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.DEBUG[2024-12-30 20:07:34.182][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-12-30 20:07:34.183][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:34.185][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-12-30 20:07:34.186][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:34.187][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2024-12-30 20:07:34.188][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:34.190][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:34.191][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:34.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:34.203][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.204][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.205][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.210][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:34.211][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:34.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.213][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.214][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:34.215][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:34.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.217][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.218][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:34.219][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:34.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.221][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.222][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.223][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.224][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.225][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.226][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.228][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.229][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:34.230][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.232][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.233][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.234][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.236][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.237][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.238][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.239][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.241][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.245][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.246][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.247][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.249][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.252][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:34.253][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:34.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.255][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.297][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-12-30 20:07:34.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:34.326][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-12-30 20:07:34.326][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:34.328][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-12-30 20:07:34.329][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:34.331][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2024-12-30 20:07:34.332][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:34.333][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:34.334][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:34.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:34.346][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.347][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.349][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.353][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:34.354][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:34.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.356][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.357][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:34.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:34.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.361][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:34.362][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:34.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.364][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.365][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:34.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:34.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.369][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:34.370][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:34.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.371][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.372][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:34.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:34.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.376][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.377][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.379][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.380][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.384][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.385][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.386][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.388][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.391][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:34.392][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.394][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.395][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:34.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.399][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.400][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.402][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.406][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.407][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.409][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.414][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.415][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.417][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.418][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.422][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:34.423][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:34.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.425][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.426][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:34.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:34.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.470][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-12-30 20:07:34.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:34.491][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-12-30 20:07:34.492][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:34.494][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-12-30 20:07:34.495][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:34.496][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2024-12-30 20:07:34.497][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:34.498][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:34.500][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:34.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:34.512][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.513][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.515][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.520][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:34.521][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:34.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.522][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.523][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:34.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:34.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.527][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:34.528][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:34.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.530][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.531][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:34.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:34.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.535][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:34.536][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:34.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.538][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:34.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:34.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.542][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.543][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.545][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.550][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.551][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.553][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.554][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.557][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:34.558][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.560][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.561][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:34.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.565][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.566][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.568][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.573][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.574][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.575][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.580][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.581][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.583][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.584][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.588][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:34.589][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:34.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.591][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.592][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:34.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:34.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.632][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-12-30 20:07:34.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:34.658][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-12-30 20:07:34.659][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:34.660][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-12-30 20:07:34.662][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:34.663][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2024-12-30 20:07:34.664][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:34.665][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:34.666][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:34.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:34.678][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.679][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.681][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.686][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:34.687][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:34.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.688][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.690][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:34.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:34.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.693][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:34.694][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:34.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.696][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.697][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:34.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:34.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.701][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:34.702][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:34.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.704][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:34.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:34.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.708][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.709][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.711][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.712][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.716][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.717][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.719][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.720][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:34.721][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.722][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.724][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:34.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.727][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.728][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.730][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.735][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.736][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.737][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.742][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.743][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.744][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.745][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.746][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.750][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:34.751][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:34.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.753][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.754][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:34.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:34.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.794][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-12-30 20:07:34.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.799][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.819][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.DEBUG[2024-12-30 20:07:34.820][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-12-30 20:07:34.821][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:34.823][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-12-30 20:07:34.824][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:34.825][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2024-12-30 20:07:34.826][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:34.828][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:34.829][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:34.830][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.836][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:34.841][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.842][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.843][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.848][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:34.849][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:34.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.851][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.852][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:34.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:34.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.856][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:34.857][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:34.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.858][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.860][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:34.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:34.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.863][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:34.864][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:34.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.866][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.867][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:34.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:34.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.871][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.872][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.874][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.875][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:34.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.879][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.879][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:34.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.881][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.882][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:34.883][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.885][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.886][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:34.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.890][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.891][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.893][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:34.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.898][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.898][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.900][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.902][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:34.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:34.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.905][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.906][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.908][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.909][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:34.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:34.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.913][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:34.914][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:34.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.915][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.917][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:34.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:34.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:34.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:34.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:34.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.957][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-12-30 20:07:34.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:34.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:34.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:34.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:34.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:34.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:34.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:34.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:34.979][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[2024-12-30 20:07:34.985][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-12-30 20:07:34.986][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:34.987][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-12-30 20:07:34.988][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:34.990][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2024-12-30 20:07:34.991][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:34.992][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:34.993][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:34.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:34.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:34.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:35.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:35.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:35.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:35.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:35.005][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.006][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.008][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.013][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.014][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.016][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.017][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.021][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.022][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.023][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.025][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.028][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:35.029][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:35.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.031][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:35.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:35.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.036][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.037][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.038][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.043][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.044][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.046][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.047][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.048][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.050][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.051][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.055][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.056][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.057][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.062][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.063][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.065][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.066][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.070][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:35.071][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:35.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.073][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.074][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:35.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:35.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.078][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:35.079][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:35.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.080][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.082][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:35.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:35.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:35.122][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-12-30 20:07:35.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:35.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:35.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:35.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:35.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:35.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:35.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:35.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:35.143][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-12-30 20:07:35.144][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:35.146][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-12-30 20:07:35.147][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:35.149][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2024-12-30 20:07:35.150][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:35.151][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:35.152][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:35.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:35.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:35.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:35.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:35.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:35.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:35.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:35.169][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.170][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.172][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.177][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.178][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.180][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.182][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.186][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.187][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.188][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.193][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:35.194][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:35.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.196][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:35.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:35.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.201][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.202][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.204][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.208][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.209][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.211][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.212][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.213][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.215][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.216][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.220][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.221][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.222][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.227][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.228][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.230][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.231][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.235][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:35.236][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:35.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.238][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.239][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:35.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:35.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.242][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:35.243][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:35.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.245][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.246][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:35.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:35.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:35.286][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-12-30 20:07:35.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:35.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:35.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:35.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:35.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:35.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:35.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:35.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:35.308][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-12-30 20:07:35.309][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:35.310][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-12-30 20:07:35.312][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:35.317][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2024-12-30 20:07:35.318][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:35.319][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:35.320][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:35.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:35.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:35.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:35.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:35.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:35.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:35.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:35.337][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.338][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.340][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.345][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.346][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.347][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.349][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.352][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.353][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.355][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.356][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.360][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:35.361][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:35.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.363][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:35.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:35.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.367][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.368][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.370][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.371][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.375][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.376][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.378][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.379][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.380][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.382][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.383][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.386][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.387][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.389][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.394][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.395][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.397][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.402][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:35.403][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:35.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.404][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.406][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:35.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:35.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.409][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:35.410][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:35.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.412][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.413][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:35.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:35.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:35.454][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-12-30 20:07:35.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:35.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:35.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:35.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:35.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:35.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:35.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:35.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:35.475][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-12-30 20:07:35.476][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:35.478][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-12-30 20:07:35.479][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:35.489][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2024-12-30 20:07:35.491][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:35.492][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:35.493][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:35.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:35.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:35.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:35.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:35.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:35.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:35.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:35.505][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.506][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.508][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.518][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.519][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.521][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.522][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.526][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.527][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.528][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.529][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.533][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:35.534][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:35.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.536][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.537][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.538][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.540][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.541][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.542][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.544][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.545][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.546][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.548][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.549][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.553][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.554][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.555][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.560][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.561][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.563][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.568][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:35.569][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:35.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.571][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.572][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:35.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:35.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.575][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:35.576][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:35.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.578][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:35.616][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-12-30 20:07:35.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:35.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:35.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:35.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:35.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:35.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:35.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:35.637][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.DEBUG[2024-12-30 20:07:35.638][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-12-30 20:07:35.639][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:35.640][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-12-30 20:07:35.642][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:35.643][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2024-12-30 20:07:35.644][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:35.646][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:35.647][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:35.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:35.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:35.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:35.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:35.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:35.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:35.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:35.659][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.661][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.662][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.667][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.668][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.670][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.671][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.675][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.676][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.678][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.679][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.683][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:35.684][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:35.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.686][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.692][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.693][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.695][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.696][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.697][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.699][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.700][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.701][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.703][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.704][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.708][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.709][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.710][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.715][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.716][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.718][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.723][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:35.724][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:35.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.726][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.727][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:35.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:35.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.731][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:35.732][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:35.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.734][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:35.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:35.773][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-12-30 20:07:35.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:35.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:35.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:35.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:35.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:35.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:35.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:35.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:35.795][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-12-30 20:07:35.796][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:35.797][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-12-30 20:07:35.798][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:35.840][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2024-12-30 20:07:35.842][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:35.843][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:35.844][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:35.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:35.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:35.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:35.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:35.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:35.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:35.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:35.857][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.858][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.860][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:35.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:35.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.865][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.866][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.868][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.869][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:35.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:35.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.873][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.874][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.876][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.877][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:35.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:35.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.881][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:35.882][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:35.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.884][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.885][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:35.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:35.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.897][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.899][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.901][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.903][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:35.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.907][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.908][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:35.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.910][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.912][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.913][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.915][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.916][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:35.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:35.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.983][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.984][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.986][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:35.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.992][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.993][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:35.995][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:35.996][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:35.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:35.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.001][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.002][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.004][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.006][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.010][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.011][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.013][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.015][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.059][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-12-30 20:07:36.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:36.082][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-12-30 20:07:36.083][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:36.085][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-12-30 20:07:36.086][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:36.088][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2024-12-30 20:07:36.089][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:36.090][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:36.091][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:36.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:36.104][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.105][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.107][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.112][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.113][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.115][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.116][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.120][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.121][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.123][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.124][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.128][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.129][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.131][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.136][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.137][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.138][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.143][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.144][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.146][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.147][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.148][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.150][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.151][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.155][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.156][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.158][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.167][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.168][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.170][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.172][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.175][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.176][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.178][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.179][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.183][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.184][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.186][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.187][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.227][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-12-30 20:07:36.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.247][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[2024-12-30 20:07:36.248][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-12-30 20:07:36.249][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:36.250][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-12-30 20:07:36.252][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:36.253][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2024-12-30 20:07:36.254][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:36.256][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:36.257][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:36.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:36.269][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.270][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.272][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.277][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.278][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.280][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.281][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.285][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.285][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.287][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.292][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.295][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.300][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.301][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.302][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.307][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.308][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.310][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.311][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.312][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.314][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.315][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.319][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.320][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.321][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.326][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.327][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.329][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.330][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.334][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.335][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.341][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.342][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.346][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.347][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.349][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.350][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.390][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-12-30 20:07:36.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:36.411][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-12-30 20:07:36.412][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:36.414][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-12-30 20:07:36.415][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:36.416][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2024-12-30 20:07:36.417][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:36.418][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:36.419][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:36.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:36.431][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.432][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.434][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.439][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.440][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.442][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.443][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.447][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.448][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.450][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.451][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.455][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.455][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.457][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.462][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.463][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.465][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.466][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.470][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.471][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.472][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.474][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.474][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.476][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.477][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.481][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.482][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.484][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.489][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.490][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.492][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.493][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.497][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.498][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.499][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.500][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.504][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.505][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.507][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.508][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.553][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-12-30 20:07:36.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.573][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[2024-12-30 20:07:36.574][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-12-30 20:07:36.575][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:36.577][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-12-30 20:07:36.578][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:36.579][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2024-12-30 20:07:36.580][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:36.581][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:36.583][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:36.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:36.595][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.596][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.597][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.602][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.603][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.605][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.606][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.610][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.611][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.612][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.614][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.617][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.618][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.620][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.625][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.626][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.628][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.633][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.634][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.635][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.637][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.638][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.639][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.641][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.644][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.645][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.647][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.652][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.653][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.655][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.656][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.660][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.661][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.662][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.663][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.667][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.668][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.670][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.671][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.716][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-12-30 20:07:36.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.727][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.728][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:36.737][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-12-30 20:07:36.738][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:36.739][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-12-30 20:07:36.740][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:36.742][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2024-12-30 20:07:36.743][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:36.744][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:36.745][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:36.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:36.757][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.758][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.759][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.764][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.765][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.767][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.768][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.772][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.773][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.774][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.776][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.780][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.780][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.782][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.787][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.788][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.790][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.795][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.796][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.797][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.799][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.800][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.801][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.803][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.806][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.807][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.809][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.814][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.815][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.817][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.818][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.822][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.823][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.824][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.826][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.829][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.830][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.832][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.833][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:36.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.878][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-12-30 20:07:36.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:36.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.898][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[2024-12-30 20:07:36.899][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-12-30 20:07:36.900][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:36.902][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-12-30 20:07:36.903][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:36.904][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2024-12-30 20:07:36.905][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:36.906][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:36.907][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:36.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:36.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:36.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:36.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:36.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:36.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:36.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:36.919][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.920][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.922][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:36.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:36.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.927][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.928][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.930][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.931][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:36.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:36.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.935][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.935][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.937][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.939][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:36.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:36.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.942][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.943][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.945][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:36.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:36.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.950][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.951][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.952][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.954][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:36.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.957][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.958][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:36.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.960][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.961][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.962][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.964][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.965][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:36.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:36.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.969][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.970][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.971][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:36.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.976][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.977][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.979][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:36.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:36.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.984][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.985][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.987][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.988][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:36.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:36.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.992][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.992][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.994][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.995][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:36.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:36.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:36.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:36.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.040][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-12-30 20:07:37.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.068][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[2024-12-30 20:07:37.071][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:37.072][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-30 20:07:37.073][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:37.075][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-12-30 20:07:37.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.106][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:37.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.135][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:37.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.164][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.TRACE[2024-12-30 20:07:37.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.218][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:37.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.260][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.TRACE[2024-12-30 20:07:37.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.302][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:37.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.343][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.TRACE[2024-12-30 20:07:37.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.430][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:37.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.471][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[2024-12-30 20:07:37.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.483][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.514][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[2024-12-30 20:07:37.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.586][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[2024-12-30 20:07:37.589][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:37.591][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2024-12-30 20:07:37.592][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:37.593][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2024-12-30 20:07:37.596][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[2024-12-30 20:07:37.599][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:37.600][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2024-12-30 20:07:37.601][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:37.603][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2024-12-30 20:07:37.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.612][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:37.614][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-12-30 20:07:37.615][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:37.617][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-12-30 20:07:37.618][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:37.619][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2024-12-30 20:07:37.620][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:37.622][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:37.623][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:37.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.635][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.636][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.637][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.642][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:37.643][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:37.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.645][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.646][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:37.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:37.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.650][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:37.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:37.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.653][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.654][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:37.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:37.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.658][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:37.659][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:37.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.661][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.662][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:37.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:37.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.666][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:37.667][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:37.668][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.668][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:37.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:37.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.673][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:37.674][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:37.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.676][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.677][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:37.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:37.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.681][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:37.682][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.684][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.685][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:37.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.689][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.690][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.691][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.696][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:37.697][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:37.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.699][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.700][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:37.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:37.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.704][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:37.705][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:37.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.707][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.708][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:37.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:37.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.712][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:37.712][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:37.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.714][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.715][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:37.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:37.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.761][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-12-30 20:07:37.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:37.804][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-12-30 20:07:37.805][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:37.806][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-12-30 20:07:37.808][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:37.809][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2024-12-30 20:07:37.810][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:37.811][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:37.812][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:37.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:37.824][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.825][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.827][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.832][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:37.833][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:37.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.835][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.836][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:37.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:37.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.840][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:37.841][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:37.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.843][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.844][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:37.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:37.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.848][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:37.849][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:37.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.851][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:37.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:37.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.856][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:37.857][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:37.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.858][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:37.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:37.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.863][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:37.864][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:37.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.866][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.867][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:37.868][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.870][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.871][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:37.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:37.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.875][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.876][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.878][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.883][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:37.884][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:37.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.886][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:37.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:37.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.891][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:37.892][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:37.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.894][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.895][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:37.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:37.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.899][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:37.905][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:37.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.906][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.908][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:37.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:37.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:37.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:37.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:37.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.948][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-12-30 20:07:37.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:37.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:37.976][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[2024-12-30 20:07:37.979][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:37.981][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-30 20:07:37.982][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:37.983][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-12-30 20:07:37.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:37.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:37.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:37.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:37.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:37.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:37.995][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:37.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:37.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:37.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.129][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.TRACE[2024-12-30 20:07:38.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.149][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[2024-12-30 20:07:38.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.170][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.TRACE[2024-12-30 20:07:38.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.191][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:38.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.212][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[2024-12-30 20:07:38.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.232][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.TRACE[2024-12-30 20:07:38.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.258][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.TRACE[2024-12-30 20:07:38.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.306][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:38.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.367][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.TRACE[2024-12-30 20:07:38.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.396][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:38.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.418][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:38.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.459][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:38.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.491][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[2024-12-30 20:07:38.494][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:38.496][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-30 20:07:38.497][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:38.498][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-12-30 20:07:38.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.509][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.TRACE[2024-12-30 20:07:38.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.558][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.TRACE[2024-12-30 20:07:38.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.586][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:38.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.640][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.TRACE[2024-12-30 20:07:38.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.723][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:38.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.744][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[2024-12-30 20:07:38.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.766][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[2024-12-30 20:07:38.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.787][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[2024-12-30 20:07:38.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.807][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:38.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.853][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.TRACE[2024-12-30 20:07:38.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.893][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:38.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:38.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:38.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:38.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:38.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:38.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:38.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:38.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:38.935][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:38.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:38.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.959][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-12-30 20:07:38.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-12-30 20:07:38.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-30 20:07:38.969][biodb::testThat]
biodb.INFO [2024-12-30 20:07:38.970][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-12-30 20:07:38.971][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:38.972][biodb::testThat]
biodb.TRACE[2024-12-30 20:07:38.975][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-30 20:07:38.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-30 20:07:38.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:38.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:38.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:38.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:38.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:38.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:38.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:38.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:38.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:38.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:38.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:39.012][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[2024-12-30 20:07:39.015][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:39.016][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-12-30 20:07:39.017][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:39.018][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-12-30 20:07:39.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.029][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:39.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.042][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[2024-12-30 20:07:39.045][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:39.046][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-12-30 20:07:39.047][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:39.048][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-12-30 20:07:39.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:39.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.079][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[2024-12-30 20:07:39.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.092][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-30 20:07:39.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:39.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.110][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.111][private$selectFields]
biodb.TRACE[2024-12-30 20:07:39.112][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:39.113][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:39.114][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.115][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.118][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.118][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.119][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.121][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.122][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.123][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.124][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.125][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.127][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.127][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:39.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.148][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-12-30 20:07:39.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:39.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.171][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.172][private$selectFields]
biodb.TRACE[2024-12-30 20:07:39.173][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:39.173][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:39.174][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.176][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.178][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.179][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.180][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.182][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.182][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.183][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.184][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.185][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.187][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.188][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:39.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.200][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-30 20:07:39.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.209][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[2024-12-30 20:07:39.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.218][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.218][private$selectFields]
biodb.TRACE[2024-12-30 20:07:39.219][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:39.220][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:39.221][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.225][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.225][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.226][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.228][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.229][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.230][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.231][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.232][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.233][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.234][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:39.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.246][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-12-30 20:07:39.247][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-30 20:07:39.248][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-30 20:07:39.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:39.339][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[2024-12-30 20:07:39.342][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:39.343][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-12-30 20:07:39.344][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:39.346][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-12-30 20:07:39.348][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[2024-12-30 20:07:39.351][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:39.352][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-12-30 20:07:39.354][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:39.355][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-12-30 20:07:39.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.366][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:39.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.387][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:39.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.408][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:39.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.443][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-30 20:07:39.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.479][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:39.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.488][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.489][private$selectFields]
biodb.TRACE[2024-12-30 20:07:39.490][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:39.491][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:39.491][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.495][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.496][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.497][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.499][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.500][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.501][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.502][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.504][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.505][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:39.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.517][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-12-30 20:07:39.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:39.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.567][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.568][private$selectFields]
biodb.TRACE[2024-12-30 20:07:39.569][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:39.570][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:39.571][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.572][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.573][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.575][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.576][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.577][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.579][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.580][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.590][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.591][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.592][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.593][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.594][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:39.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.607][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-30 20:07:39.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.616][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[2024-12-30 20:07:39.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.625][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.626][private$selectFields]
biodb.TRACE[2024-12-30 20:07:39.627][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:39.627][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:39.637][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.638][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.639][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.641][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.642][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.643][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.645][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.646][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.646][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.647][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.648][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.650][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.651][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:39.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.663][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-12-30 20:07:39.664][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-30 20:07:39.665][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-30 20:07:39.673][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-12-30 20:07:39.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-12-30 20:07:39.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-30 20:07:39.680][biodb::testThat]
biodb.INFO [2024-12-30 20:07:39.680][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-12-30 20:07:39.681][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:39.682][biodb::testThat]
biodb.TRACE[2024-12-30 20:07:39.685][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-30 20:07:39.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-30 20:07:39.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:39.716][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[2024-12-30 20:07:39.719][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:39.721][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-12-30 20:07:39.722][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:39.723][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-12-30 20:07:39.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:39.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.747][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[2024-12-30 20:07:39.750][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:39.751][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-12-30 20:07:39.752][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:39.753][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-12-30 20:07:39.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.764][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.TRACE[2024-12-30 20:07:39.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:39.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:39.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.797][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-30 20:07:39.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.807][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:39.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.821][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.822][private$selectFields]
biodb.TRACE[2024-12-30 20:07:39.823][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:39.824][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:39.825][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.826][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.827][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.828][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.829][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.830][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.832][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.833][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.834][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.835][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.836][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.838][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.838][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:39.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.851][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-12-30 20:07:39.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:39.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.869][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.870][private$selectFields]
biodb.TRACE[2024-12-30 20:07:39.871][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:39.871][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:39.872][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.873][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.874][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.876][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.880][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.881][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.882][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.882][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.883][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.885][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.886][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:39.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.899][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-30 20:07:39.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:39.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.918][private$selectFields]
biodb.TRACE[2024-12-30 20:07:39.919][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:39.920][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:39.921][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.923][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.924][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.925][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.926][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.928][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.929][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.930][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:39.931][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.932][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.934][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.935][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:39.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.947][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-12-30 20:07:39.948][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-30 20:07:39.949][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-30 20:07:39.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:39.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:39.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:39.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:39.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:39.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:39.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:39.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:39.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:39.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:39.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:39.991][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[2024-12-30 20:07:39.994][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:39.995][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-12-30 20:07:39.996][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:39.998][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-12-30 20:07:40.001][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[2024-12-30 20:07:40.003][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:40.005][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-12-30 20:07:40.006][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:40.007][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-12-30 20:07:40.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.038][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.069][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.TRACE[2024-12-30 20:07:40.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.083][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-30 20:07:40.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.106][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.107][private$selectFields]
biodb.TRACE[2024-12-30 20:07:40.108][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:40.109][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:40.110][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.111][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.112][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.114][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.115][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.118][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.119][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.120][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.121][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.125][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.126][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:40.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.140][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-12-30 20:07:40.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.160][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.161][private$selectFields]
biodb.TRACE[2024-12-30 20:07:40.162][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:40.163][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:40.164][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.165][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.166][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.168][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.169][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.170][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.172][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.173][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.174][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.177][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.178][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.194][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:40.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.209][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-30 20:07:40.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.220][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.TRACE[2024-12-30 20:07:40.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.229][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.230][private$selectFields]
biodb.TRACE[2024-12-30 20:07:40.231][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:40.232][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:40.233][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.237][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.238][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.239][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.241][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.242][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.243][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.244][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.245][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.247][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.248][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:40.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.261][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-12-30 20:07:40.262][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-30 20:07:40.262][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-30 20:07:40.270][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-12-30 20:07:40.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-12-30 20:07:40.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-30 20:07:40.277][biodb::testThat]
biodb.INFO [2024-12-30 20:07:40.278][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-12-30 20:07:40.279][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:40.279][biodb::testThat]
biodb.TRACE[2024-12-30 20:07:40.282][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-30 20:07:40.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-30 20:07:40.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:40.316][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[2024-12-30 20:07:40.319][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:40.320][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-12-30 20:07:40.321][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:40.322][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-12-30 20:07:40.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.334][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:40.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.346][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[2024-12-30 20:07:40.349][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:40.351][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-12-30 20:07:40.352][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:40.353][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-12-30 20:07:40.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.382][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.390][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.TRACE[2024-12-30 20:07:40.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.402][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-30 20:07:40.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.413][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:40.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.421][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.422][private$selectFields]
biodb.TRACE[2024-12-30 20:07:40.423][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:40.424][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:40.425][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.426][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.427][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.428][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.432][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.433][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.434][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.435][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.436][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.437][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.438][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:40.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.450][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-12-30 20:07:40.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.468][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.469][private$selectFields]
biodb.TRACE[2024-12-30 20:07:40.470][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:40.471][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:40.472][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.473][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.474][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.476][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.477][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.478][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.479][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.480][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.481][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.482][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.483][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.485][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.486][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:40.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.499][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-30 20:07:40.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.517][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.518][private$selectFields]
biodb.TRACE[2024-12-30 20:07:40.519][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:40.520][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:40.521][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.522][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.523][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.524][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.525][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.528][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.529][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.530][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.531][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.532][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.533][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.534][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:40.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.552][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-12-30 20:07:40.553][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-30 20:07:40.554][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-30 20:07:40.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:40.601][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[2024-12-30 20:07:40.604][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:40.605][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-12-30 20:07:40.606][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:40.607][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-12-30 20:07:40.610][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[2024-12-30 20:07:40.613][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:40.614][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-12-30 20:07:40.615][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:40.617][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-12-30 20:07:40.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.628][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[2024-12-30 20:07:40.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.683][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-30 20:07:40.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.701][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.702][private$selectFields]
biodb.TRACE[2024-12-30 20:07:40.703][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:40.704][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:40.705][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.705][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.706][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.708][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.709][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.710][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.712][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.714][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.715][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.717][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.718][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:40.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.736][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-12-30 20:07:40.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.754][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.755][private$selectFields]
biodb.TRACE[2024-12-30 20:07:40.756][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:40.757][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:40.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.761][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.762][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.763][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.765][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.766][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.767][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.767][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.768][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.770][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.771][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:40.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.783][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-30 20:07:40.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.793][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:40.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.801][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.802][private$selectFields]
biodb.TRACE[2024-12-30 20:07:40.803][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-30 20:07:40.804][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-30 20:07:40.805][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.805][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.808][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.809][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.810][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.812][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.813][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.814][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-30 20:07:40.814][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.815][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.817][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.818][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-30 20:07:40.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.830][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-12-30 20:07:40.831][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-30 20:07:40.832][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-30 20:07:40.850][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-12-30 20:07:40.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-12-30 20:07:40.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-30 20:07:40.856][biodb::testThat]
biodb.INFO [2024-12-30 20:07:40.857][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-12-30 20:07:40.858][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:40.859][biodb::testThat]
biodb.DEBUG[2024-12-30 20:07:40.861][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-12-30 20:07:40.862][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:40.863][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-12-30 20:07:40.864][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:40.866][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2024-12-30 20:07:40.867][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:40.868][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:40.869][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:40.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:40.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:40.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:40.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:40.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:40.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:40.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:40.882][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:40.883][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:40.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.884][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:40.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:40.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.890][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:40.891][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:40.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.899][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.900][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:40.902][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:40.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.904][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.905][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:40.906][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:40.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.908][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.909][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:40.910][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:40.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.912][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.913][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:40.914][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:40.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.916][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.917][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:40.918][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:40.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.920][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.921][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.922][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:40.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.924][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.925][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:40.926][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:40.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.928][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.929][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:40.930][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:40.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.932][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.933][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:40.934][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:40.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.936][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:40.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:40.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:40.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:40.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:40.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:40.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:40.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:40.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:40.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:40.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:40.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:40.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:40.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:40.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:40.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:40.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:40.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:40.974][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-12-30 20:07:40.975][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-12-30 20:07:40.982][biodb::testThat]
biodb.INFO [2024-12-30 20:07:40.983][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-12-30 20:07:40.983][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:40.984][biodb::testThat]
biodb.DEBUG[2024-12-30 20:07:40.992][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-12-30 20:07:40.994][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-12-30 20:07:40.995][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-12-30 20:07:40.996][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-12-30 20:07:40.997][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2024-12-30 20:07:41.000][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2024-12-30 20:07:41.001][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:41.002][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-12-30 20:07:41.003][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:41.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:41.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:41.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:41.016][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.017][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.018][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.023][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:41.024][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:41.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.026][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.027][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:41.028][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:41.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.030][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.032][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:41.033][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:41.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.034][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.035][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:41.036][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:41.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.038][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.039][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:41.040][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:41.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.042][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.043][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:41.044][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:41.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.046][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.047][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.049][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.050][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.052][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:41.053][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:41.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.055][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.056][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:41.057][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:41.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.059][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.060][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:41.061][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:41.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.063][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:41.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:41.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:41.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.105][FUN] Functions in observer BiodbConfig: [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[2024-12-30 20:07:41.107][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.108][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.110][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.115][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:41.116][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:41.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.118][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.119][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:41.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:41.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.123][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:41.124][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:41.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.125][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.127][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:41.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:41.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.131][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:41.132][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:41.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.133][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.135][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:41.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:41.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.138][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:41.139][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:41.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.141][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:41.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:41.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.146][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:41.147][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:41.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.149][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.150][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:41.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:41.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.153][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:41.154][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:41.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.156][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.157][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:41.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:41.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.161][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.162][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.164][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.169][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:41.170][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:41.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.172][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:41.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:41.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.177][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:41.178][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:41.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.180][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.181][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:41.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:41.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.185][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:41.186][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:41.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.187][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.189][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:41.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:41.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:41.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:41.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:41.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.227][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.TRACE[2024-12-30 20:07:41.229][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.230][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.232][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.237][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:41.238][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:41.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.239][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.245][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:41.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:41.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.250][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:41.251][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:41.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.253][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.254][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:41.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:41.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.258][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:41.259][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:41.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.260][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:41.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:41.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.265][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:41.266][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:41.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.268][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:41.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:41.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.273][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:41.274][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:41.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.276][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.277][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:41.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:41.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.280][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:41.281][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:41.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.283][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.284][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:41.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:41.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.288][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.289][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.291][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.296][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:41.297][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:41.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.298][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:41.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:41.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.303][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:41.304][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:41.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.306][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.307][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:41.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:41.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.311][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:41.312][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:41.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.314][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.315][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:41.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:41.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:41.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:41.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:41.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:41.378][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-12-30 20:07:41.378][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-12-30 20:07:41.379][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-12-30 20:07:41.391][biodb::testThat]
biodb.INFO [2024-12-30 20:07:41.392][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-12-30 20:07:41.393][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:41.394][biodb::testThat]
biodb.INFO [2024-12-30 20:07:41.421][biodb::testThat]
biodb.INFO [2024-12-30 20:07:41.422][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-12-30 20:07:41.423][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:41.424][biodb::testThat]
biodb.INFO [2024-12-30 20:07:41.431][biodb::testThat]
biodb.INFO [2024-12-30 20:07:41.432][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-12-30 20:07:41.433][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:41.434][biodb::testThat]
biodb.DEBUG[2024-12-30 20:07:41.436][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[2024-12-30 20:07:41.439][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:41.441][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2024-12-30 20:07:41.442][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:41.443][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2024-12-30 20:07:41.454][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:41.455][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:41.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.457][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:41.458][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.459][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:41.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:41.460][ef$get] fields variable is a list.
biodb.INFO [2024-12-30 20:07:41.462][biodb::testThat]
biodb.INFO [2024-12-30 20:07:41.463][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2024-12-30 20:07:41.464][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:41.464][biodb::testThat]
biodb.ERROR[2024-12-30 20:07:41.477][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-12-30 20:07:41.493][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-12-30 20:07:41.506][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-12-30 20:07:41.507][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-12-30 20:07:41.508][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-12-30 20:07:41.509][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-12-30 20:07:41.510][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:41.511][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.513][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.514][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.INFO [2024-12-30 20:07:41.523][biodb::testContext]
biodb.INFO [2024-12-30 20:07:41.524][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-30 20:07:41.525][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-12-30 20:07:41.526][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-30 20:07:41.527][biodb::testContext]
biodb.INFO [2024-12-30 20:07:41.529][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-12-30 20:07:41.530][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-12-30 20:07:41.534][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:41.535][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-12-30 20:07:41.536][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-12-30 20:07:41.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.540][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-12-30 20:07:41.540][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-12-30 20:07:41.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.544][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-12-30 20:07:41.545][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-12-30 20:07:41.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.548][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-12-30 20:07:41.549][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-12-30 20:07:41.550][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-12-30 20:07:41.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.553][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-12-30 20:07:41.554][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-12-30 20:07:41.555][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-12-30 20:07:41.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.559][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-12-30 20:07:41.560][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-12-30 20:07:41.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.563][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-12-30 20:07:41.564][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-12-30 20:07:41.565][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-12-30 20:07:41.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.568][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-12-30 20:07:41.569][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-12-30 20:07:41.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.572][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-12-30 20:07:41.573][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-12-30 20:07:41.574][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-12-30 20:07:41.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.578][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-12-30 20:07:41.579][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-12-30 20:07:41.580][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-12-30 20:07:41.586][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-12-30 20:07:41.587][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-12-30 20:07:41.589][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-12-30 20:07:41.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.592][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-12-30 20:07:41.593][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-12-30 20:07:41.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.596][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-12-30 20:07:41.597][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-12-30 20:07:41.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.601][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-12-30 20:07:41.602][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-12-30 20:07:41.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.605][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-12-30 20:07:41.606][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-12-30 20:07:41.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.608][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[2024-12-30 20:07:41.609][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-12-30 20:07:41.610][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-12-30 20:07:41.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.613][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-12-30 20:07:41.614][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-12-30 20:07:41.617][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-12-30 20:07:41.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.621][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-12-30 20:07:41.622][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-12-30 20:07:41.623][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-12-30 20:07:41.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.626][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-12-30 20:07:41.652][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.654][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-12-30 20:07:41.654][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.655][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:41.656][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.657][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.658][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.659][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.660][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-30 20:07:41.661][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:41.662][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.663][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-12-30 20:07:41.664][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:41.665][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.665][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.666][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:41.666][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:41.666][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:41.666][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-30 20:07:41.666][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-30 20:07:41.667][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:41.668][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:41.669][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:41.670][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:41.671][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:41.672][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:41.673][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.673][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.674][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:41.675][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:41.676][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.677][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.678][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-12-30 20:07:41.680][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.681][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-12-30 20:07:41.682][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.683][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:41.683][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.684][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.685][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.686][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.687][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-30 20:07:41.688][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:41.689][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.690][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-12-30 20:07:41.691][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:41.692][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.693][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.694][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:41.694][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:41.694][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:41.694][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-30 20:07:41.694][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-30 20:07:41.695][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:41.695][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:41.696][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:41.697][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:41.698][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:41.699][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:41.700][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.701][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.702][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:41.702][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:41.703][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.704][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.705][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-12-30 20:07:41.707][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.708][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-12-30 20:07:41.709][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.710][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:41.711][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.712][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.713][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.713][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.714][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-30 20:07:41.715][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:41.716][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.717][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-12-30 20:07:41.718][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:41.719][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.720][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.721][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.722][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:41.723][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:41.723][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:41.724][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:41.725][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:41.726][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:41.727][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.728][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.729][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:41.729][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:41.730][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.731][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.732][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-12-30 20:07:41.734][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.735][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-12-30 20:07:41.736][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.737][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:41.738][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.743][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.744][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.745][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.747][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-30 20:07:41.748][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:41.748][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.749][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-12-30 20:07:41.750][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:41.751][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.752][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:41.753][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.754][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:41.755][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:41.756][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:41.757][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:41.757][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:41.758][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:41.759][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:41.760][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.761][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:41.762][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:41.763][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:41.764][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:41.765][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:41.766][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.783][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.DEBUG[2024-12-30 20:07:41.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.791][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[2024-12-30 20:07:41.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.800][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[2024-12-30 20:07:41.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.812][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[2024-12-30 20:07:41.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.816][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[2024-12-30 20:07:41.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.829][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[2024-12-30 20:07:41.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.833][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[2024-12-30 20:07:41.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.838][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-12-30 20:07:41.839][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-12-30 20:07:41.841][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-12-30 20:07:41.842][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-12-30 20:07:41.843][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-30 20:07:41.845][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-30 20:07:41.846][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-12-30 20:07:41.847][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-12-30 20:07:41.848][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-12-30 20:07:41.850][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-30 20:07:41.851][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-30 20:07:41.852][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-12-30 20:07:41.854][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-12-30 20:07:41.855][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-12-30 20:07:41.856][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-12-30 20:07:41.857][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-30 20:07:41.859][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-12-30 20:07:41.860][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-12-30 20:07:41.861][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-30 20:07:41.863][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-12-30 20:07:41.864][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-12-30 20:07:41.865][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-12-30 20:07:41.867][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-12-30 20:07:41.868][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-12-30 20:07:41.869][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-12-30 20:07:41.870][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-12-30 20:07:41.872][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-12-30 20:07:41.873][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-12-30 20:07:41.874][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-12-30 20:07:41.876][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-12-30 20:07:41.877][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-12-30 20:07:41.878][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-12-30 20:07:41.879][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-12-30 20:07:41.881][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-12-30 20:07:41.882][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-12-30 20:07:41.883][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-12-30 20:07:41.885][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-12-30 20:07:41.886][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-12-30 20:07:41.887][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-12-30 20:07:41.888][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-12-30 20:07:41.890][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-12-30 20:07:41.891][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-12-30 20:07:41.892][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-12-30 20:07:41.894][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-12-30 20:07:41.895][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-12-30 20:07:41.896][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-12-30 20:07:41.897][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-12-30 20:07:41.899][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-12-30 20:07:41.905][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-12-30 20:07:41.907][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-12-30 20:07:41.908][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-12-30 20:07:41.910][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-12-30 20:07:41.911][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-12-30 20:07:41.912][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-12-30 20:07:41.914][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-12-30 20:07:41.915][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-12-30 20:07:41.916][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-12-30 20:07:41.917][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-12-30 20:07:41.919][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-12-30 20:07:41.920][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-12-30 20:07:41.921][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-12-30 20:07:41.923][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-12-30 20:07:41.924][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-12-30 20:07:41.925][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-12-30 20:07:41.926][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-12-30 20:07:41.928][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-12-30 20:07:41.929][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-30 20:07:41.930][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-30 20:07:41.932][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-12-30 20:07:41.933][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-12-30 20:07:41.934][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-12-30 20:07:41.936][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-12-30 20:07:41.937][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-12-30 20:07:41.938][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-12-30 20:07:41.939][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-12-30 20:07:41.941][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-12-30 20:07:41.942][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-12-30 20:07:41.943][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-12-30 20:07:41.945][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-12-30 20:07:41.946][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-12-30 20:07:41.947][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-12-30 20:07:41.948][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-12-30 20:07:41.950][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-12-30 20:07:41.951][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-12-30 20:07:41.952][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-12-30 20:07:41.953][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:41.954][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.956][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:41.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:41.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:41.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:41.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:41.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.985][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[2024-12-30 20:07:41.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:41.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.991][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[2024-12-30 20:07:41.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:41.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:41.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:41.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:41.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:41.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:41.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:41.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.003][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[2024-12-30 20:07:42.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.008][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[2024-12-30 20:07:42.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.014][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[2024-12-30 20:07:42.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.026][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[2024-12-30 20:07:42.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.031][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[2024-12-30 20:07:42.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.037][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[2024-12-30 20:07:42.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.048][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[2024-12-30 20:07:42.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.054][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[2024-12-30 20:07:42.056][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-12-30 20:07:42.057][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-12-30 20:07:42.059][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.065][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.066][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.067][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:42.068][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.069][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.070][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.071][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-12-30 20:07:42.072][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-12-30 20:07:42.073][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:42.074][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.075][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-12-30 20:07:42.076][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:42.077][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-12-30 20:07:42.077][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-12-30 20:07:42.077][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-12-30 20:07:42.077][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-12-30 20:07:42.077][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-12-30 20:07:42.077][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-12-30 20:07:42.077][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-12-30 20:07:42.077][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-12-30 20:07:42.077][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-12-30 20:07:42.077][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-12-30 20:07:42.077][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-12-30 20:07:42.078][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.079][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:42.079][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:42.079][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:42.080][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-12-30 20:07:42.080][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.081][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.082][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:42.083][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.084][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.085][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.086][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-30 20:07:42.086][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-12-30 20:07:42.087][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:42.087][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:42.088][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.089][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-12-30 20:07:42.089][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-12-30 20:07:42.091][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-30 20:07:42.092][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-30 20:07:42.094][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-12-30 20:07:42.095][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-30 20:07:42.096][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-30 20:07:42.098][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-30 20:07:42.101][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-12-30 20:07:42.102][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-12-30 20:07:42.103][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-12-30 20:07:42.104][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-12-30 20:07:42.105][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-30 20:07:42.106][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-30 20:07:42.107][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-12-30 20:07:42.108][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-12-30 20:07:42.110][biodb::testThat]
biodb.INFO [2024-12-30 20:07:42.111][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2024-12-30 20:07:42.111][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:42.112][biodb::testThat]
biodb.DEBUG[2024-12-30 20:07:42.116][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-12-30 20:07:42.119][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.120][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-12-30 20:07:42.121][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.123][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-12-30 20:07:42.126][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[2024-12-30 20:07:42.129][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.130][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-12-30 20:07:42.131][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.133][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-12-30 20:07:42.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:42.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.143][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.DEBUG[2024-12-30 20:07:42.144][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[2024-12-30 20:07:42.147][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.149][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-12-30 20:07:42.150][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.151][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-12-30 20:07:42.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:42.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:42.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.194][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[2024-12-30 20:07:42.197][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.198][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-12-30 20:07:42.200][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.201][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-12-30 20:07:42.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:42.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.211][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[2024-12-30 20:07:42.213][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[2024-12-30 20:07:42.216][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.217][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-12-30 20:07:42.218][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.219][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-12-30 20:07:42.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:42.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:42.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.248][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[2024-12-30 20:07:42.250][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.252][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-12-30 20:07:42.253][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.254][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-12-30 20:07:42.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:42.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.264][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[2024-12-30 20:07:42.265][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[2024-12-30 20:07:42.268][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.269][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-12-30 20:07:42.271][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.272][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-12-30 20:07:42.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:42.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.284][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[2024-12-30 20:07:42.287][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.288][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2024-12-30 20:07:42.289][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.290][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2024-12-30 20:07:42.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:42.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.300][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.INFO [2024-12-30 20:07:42.306][biodb::testThat]
biodb.INFO [2024-12-30 20:07:42.307][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2024-12-30 20:07:42.308][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:42.309][biodb::testThat]
biodb.DEBUG[2024-12-30 20:07:42.312][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[2024-12-30 20:07:42.315][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.316][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2024-12-30 20:07:42.317][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.319][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2024-12-30 20:07:42.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:42.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.332][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[2024-12-30 20:07:42.336][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.337][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2024-12-30 20:07:42.338][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.339][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2024-12-30 20:07:42.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:42.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.349][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.INFO [2024-12-30 20:07:42.354][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-12-30 20:07:42.355][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-12-30 20:07:42.356][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-12-30 20:07:42.357][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-12-30 20:07:42.358][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.360][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.361][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.362][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.INFO [2024-12-30 20:07:42.365][biodb::testContext]
biodb.INFO [2024-12-30 20:07:42.366][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-30 20:07:42.367][biodb::testContext] Test context - Test web services
biodb.INFO [2024-12-30 20:07:42.368][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-30 20:07:42.369][biodb::testContext]
biodb.INFO [2024-12-30 20:07:42.371][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-12-30 20:07:42.372][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-12-30 20:07:42.376][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:42.377][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-12-30 20:07:42.378][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-12-30 20:07:42.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.381][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-12-30 20:07:42.382][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-12-30 20:07:42.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.385][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-12-30 20:07:42.386][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-12-30 20:07:42.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.390][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-12-30 20:07:42.391][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-12-30 20:07:42.392][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-12-30 20:07:42.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.394][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[2024-12-30 20:07:42.395][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-12-30 20:07:42.396][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-12-30 20:07:42.397][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-12-30 20:07:42.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.400][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-12-30 20:07:42.401][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-12-30 20:07:42.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.404][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-12-30 20:07:42.405][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-12-30 20:07:42.406][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-12-30 20:07:42.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.415][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-12-30 20:07:42.417][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-12-30 20:07:42.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.420][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-12-30 20:07:42.421][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-12-30 20:07:42.422][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-12-30 20:07:42.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.425][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-12-30 20:07:42.426][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-12-30 20:07:42.427][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-12-30 20:07:42.428][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-12-30 20:07:42.429][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-12-30 20:07:42.430][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-12-30 20:07:42.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.432][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[2024-12-30 20:07:42.433][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-12-30 20:07:42.434][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-12-30 20:07:42.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.438][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-12-30 20:07:42.439][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-12-30 20:07:42.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.442][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-12-30 20:07:42.443][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-12-30 20:07:42.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.446][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-12-30 20:07:42.447][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-12-30 20:07:42.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.451][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-12-30 20:07:42.452][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-12-30 20:07:42.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.455][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-12-30 20:07:42.456][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-12-30 20:07:42.459][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-12-30 20:07:42.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.462][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-12-30 20:07:42.463][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-12-30 20:07:42.464][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-12-30 20:07:42.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.468][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-12-30 20:07:42.470][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.471][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-12-30 20:07:42.472][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.473][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:42.474][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.475][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.475][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.476][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.477][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-30 20:07:42.478][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:42.479][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.480][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-12-30 20:07:42.481][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:42.482][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.483][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.484][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:42.484][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:42.484][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:42.484][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-30 20:07:42.484][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-30 20:07:42.485][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:42.486][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.487][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.488][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:42.489][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.490][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.491][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.492][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:42.493][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:42.494][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.495][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.496][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-12-30 20:07:42.498][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.499][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-12-30 20:07:42.500][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.501][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:42.502][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.503][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.504][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.505][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.505][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-30 20:07:42.506][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:42.507][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.508][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-12-30 20:07:42.509][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:42.510][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.511][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.512][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:42.512][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:42.512][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:42.512][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-30 20:07:42.512][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-30 20:07:42.513][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:42.514][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.515][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.516][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:42.517][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.518][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.519][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.520][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.521][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:42.522][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:42.522][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.524][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.525][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-12-30 20:07:42.527][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.528][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-12-30 20:07:42.529][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.530][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:42.531][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.532][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.533][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.534][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.535][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-30 20:07:42.536][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:42.537][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.538][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-12-30 20:07:42.539][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:42.540][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.541][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.542][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.543][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:42.544][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.545][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.546][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:42.546][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.547][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.548][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.549][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.550][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:42.551][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:42.552][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.553][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.554][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-12-30 20:07:42.556][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.557][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-12-30 20:07:42.557][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.558][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:42.559][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.560][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.561][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.562][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.563][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-30 20:07:42.564][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:42.565][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.566][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-12-30 20:07:42.567][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:42.568][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.569][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.570][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.571][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:42.572][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.572][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.573][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:42.574][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.580][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.581][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.582][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.583][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:42.584][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:42.585][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.586][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:42.587][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:42.588][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.593][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[2024-12-30 20:07:42.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.605][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[2024-12-30 20:07:42.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.609][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[2024-12-30 20:07:42.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.659][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-12-30 20:07:42.660][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-12-30 20:07:42.662][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-12-30 20:07:42.663][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-12-30 20:07:42.665][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-30 20:07:42.666][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-30 20:07:42.667][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-12-30 20:07:42.669][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-12-30 20:07:42.670][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-12-30 20:07:42.671][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-30 20:07:42.673][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-30 20:07:42.674][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-12-30 20:07:42.675][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-12-30 20:07:42.677][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-12-30 20:07:42.678][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-12-30 20:07:42.679][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-30 20:07:42.680][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-12-30 20:07:42.682][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-12-30 20:07:42.683][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-30 20:07:42.684][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-12-30 20:07:42.686][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-12-30 20:07:42.687][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-12-30 20:07:42.688][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-12-30 20:07:42.690][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-12-30 20:07:42.691][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-12-30 20:07:42.692][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-12-30 20:07:42.693][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-12-30 20:07:42.695][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-12-30 20:07:42.696][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-12-30 20:07:42.697][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-12-30 20:07:42.699][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-12-30 20:07:42.700][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-12-30 20:07:42.701][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-12-30 20:07:42.703][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-12-30 20:07:42.704][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-12-30 20:07:42.705][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-12-30 20:07:42.706][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-12-30 20:07:42.708][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-12-30 20:07:42.709][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-12-30 20:07:42.710][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-12-30 20:07:42.712][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-12-30 20:07:42.713][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-12-30 20:07:42.714][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-12-30 20:07:42.715][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-12-30 20:07:42.717][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-12-30 20:07:42.718][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-12-30 20:07:42.719][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-12-30 20:07:42.721][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-12-30 20:07:42.722][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-12-30 20:07:42.723][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-12-30 20:07:42.725][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-12-30 20:07:42.726][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-12-30 20:07:42.727][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-12-30 20:07:42.728][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-12-30 20:07:42.730][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-12-30 20:07:42.731][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-12-30 20:07:42.738][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-12-30 20:07:42.740][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-12-30 20:07:42.742][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-12-30 20:07:42.743][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-12-30 20:07:42.744][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-12-30 20:07:42.746][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-12-30 20:07:42.747][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-12-30 20:07:42.748][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-12-30 20:07:42.749][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-12-30 20:07:42.751][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-12-30 20:07:42.752][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-30 20:07:42.753][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-30 20:07:42.755][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-12-30 20:07:42.756][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-12-30 20:07:42.757][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-12-30 20:07:42.759][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-12-30 20:07:42.760][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-12-30 20:07:42.761][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-12-30 20:07:42.763][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-12-30 20:07:42.764][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-12-30 20:07:42.765][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-12-30 20:07:42.767][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-12-30 20:07:42.768][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-12-30 20:07:42.769][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-12-30 20:07:42.771][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-12-30 20:07:42.772][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-12-30 20:07:42.773][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-12-30 20:07:42.775][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-12-30 20:07:42.776][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-12-30 20:07:42.777][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:42.778][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.780][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.786][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[2024-12-30 20:07:42.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.858][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[2024-12-30 20:07:42.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.864][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[2024-12-30 20:07:42.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.870][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[2024-12-30 20:07:42.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.881][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[2024-12-30 20:07:42.883][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-12-30 20:07:42.884][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-12-30 20:07:42.886][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.887][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.888][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.889][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:42.890][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.891][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.892][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.893][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-12-30 20:07:42.894][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-12-30 20:07:42.900][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:42.902][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.903][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-12-30 20:07:42.904][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:42.905][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-12-30 20:07:42.905][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-12-30 20:07:42.905][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-12-30 20:07:42.905][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-12-30 20:07:42.905][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-12-30 20:07:42.905][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-12-30 20:07:42.905][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-12-30 20:07:42.905][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-12-30 20:07:42.905][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-12-30 20:07:42.905][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-12-30 20:07:42.905][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-12-30 20:07:42.906][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:42.907][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:42.907][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:42.907][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:42.908][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-12-30 20:07:42.909][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.910][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.911][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:42.912][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:42.912][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:42.913][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:42.914][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-30 20:07:42.914][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-12-30 20:07:42.915][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:42.916][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:42.917][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:42.918][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-12-30 20:07:42.918][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-12-30 20:07:42.919][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-30 20:07:42.921][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-30 20:07:42.922][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-12-30 20:07:42.924][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-30 20:07:42.925][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-30 20:07:42.927][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-30 20:07:42.930][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-12-30 20:07:42.931][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-12-30 20:07:42.932][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-12-30 20:07:42.934][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-12-30 20:07:42.935][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-30 20:07:42.936][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-30 20:07:42.937][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-12-30 20:07:42.938][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-12-30 20:07:42.939][biodb::testThat]
biodb.INFO [2024-12-30 20:07:42.940][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-12-30 20:07:42.941][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:42.942][biodb::testThat]
biodb.DEBUG[2024-12-30 20:07:42.945][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-12-30 20:07:42.949][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.950][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-12-30 20:07:42.951][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.953][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-12-30 20:07:42.956][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[2024-12-30 20:07:42.959][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:42.960][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-12-30 20:07:42.962][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:42.963][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2024-12-30 20:07:42.971][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-12-30 20:07:42.972][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-12-30 20:07:42.973][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-12-30 20:07:42.974][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-12-30 20:07:42.975][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:42.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:42.977][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:42.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:42.978][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.979][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.INFO [2024-12-30 20:07:42.982][biodb::testContext]
biodb.INFO [2024-12-30 20:07:42.983][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-30 20:07:42.984][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-12-30 20:07:42.985][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-30 20:07:42.986][biodb::testContext]
biodb.INFO [2024-12-30 20:07:42.988][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-12-30 20:07:42.990][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-12-30 20:07:42.994][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:42.994][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-12-30 20:07:42.995][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-12-30 20:07:42.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:42.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:42.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:42.999][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-12-30 20:07:43.000][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-12-30 20:07:43.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.003][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[2024-12-30 20:07:43.004][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-12-30 20:07:43.005][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-12-30 20:07:43.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.008][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-12-30 20:07:43.009][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-12-30 20:07:43.010][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-12-30 20:07:43.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.014][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-12-30 20:07:43.015][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-12-30 20:07:43.016][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-12-30 20:07:43.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.020][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-12-30 20:07:43.021][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-12-30 20:07:43.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.023][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.DEBUG[2024-12-30 20:07:43.024][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-12-30 20:07:43.025][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-12-30 20:07:43.026][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-12-30 20:07:43.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.030][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-12-30 20:07:43.031][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-12-30 20:07:43.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.035][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-12-30 20:07:43.036][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-12-30 20:07:43.037][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-12-30 20:07:43.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.040][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-12-30 20:07:43.041][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-12-30 20:07:43.042][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-12-30 20:07:43.043][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-12-30 20:07:43.044][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-12-30 20:07:43.045][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-12-30 20:07:43.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.048][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[2024-12-30 20:07:43.049][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-12-30 20:07:43.050][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-12-30 20:07:43.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.054][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-12-30 20:07:43.055][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-12-30 20:07:43.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.058][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-12-30 20:07:43.059][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-12-30 20:07:43.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.063][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-12-30 20:07:43.064][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-12-30 20:07:43.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.067][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-12-30 20:07:43.068][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-12-30 20:07:43.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.079][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-12-30 20:07:43.080][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-12-30 20:07:43.083][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-12-30 20:07:43.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.087][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-12-30 20:07:43.088][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-12-30 20:07:43.089][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-12-30 20:07:43.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.092][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-12-30 20:07:43.094][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.095][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-12-30 20:07:43.096][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.097][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:43.098][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.099][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.100][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.101][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.102][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-30 20:07:43.103][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:43.104][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.104][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-12-30 20:07:43.105][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:43.106][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.107][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.108][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:43.108][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:43.108][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:43.108][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-30 20:07:43.108][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-30 20:07:43.109][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:43.110][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:43.111][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:43.112][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:43.113][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:43.114][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:43.114][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.115][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.116][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:43.117][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:43.118][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.119][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.120][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-12-30 20:07:43.122][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.123][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-12-30 20:07:43.124][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.125][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:43.125][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.126][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.127][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.128][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.129][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-30 20:07:43.130][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:43.131][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.132][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-12-30 20:07:43.133][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:43.134][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.135][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.136][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:43.136][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:43.136][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:43.136][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-30 20:07:43.136][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-30 20:07:43.136][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:43.137][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:43.138][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:43.139][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:43.140][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:43.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:43.142][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.143][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.143][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:43.144][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:43.145][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.146][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.147][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-12-30 20:07:43.149][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.150][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-12-30 20:07:43.151][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.152][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:43.152][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.153][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.154][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.155][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.156][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-30 20:07:43.157][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:43.158][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.159][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-12-30 20:07:43.160][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:43.161][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.162][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.162][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.163][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:43.164][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:43.165][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:43.166][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:43.167][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:43.168][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:43.169][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.170][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.170][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:43.171][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:43.172][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.173][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.174][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-12-30 20:07:43.176][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.177][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-12-30 20:07:43.178][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.179][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:43.180][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.181][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.181][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.182][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.183][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-30 20:07:43.184][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:43.185][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.186][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-12-30 20:07:43.187][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:43.188][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.189][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.190][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.191][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-30 20:07:43.192][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:43.193][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:43.193][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:43.194][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:43.195][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:43.196][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.197][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.198][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:43.199][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:43.200][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.201][self$setPropertyValue]
biodb.DEBUG[2024-12-30 20:07:43.202][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:43.203][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.204][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[2024-12-30 20:07:43.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.212][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.DEBUG[2024-12-30 20:07:43.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.216][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[2024-12-30 20:07:43.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.220][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[2024-12-30 20:07:43.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.467][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[2024-12-30 20:07:43.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.471][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.DEBUG[2024-12-30 20:07:43.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.476][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-12-30 20:07:43.477][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-12-30 20:07:43.478][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-12-30 20:07:43.480][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-12-30 20:07:43.481][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-30 20:07:43.482][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-30 20:07:43.484][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-12-30 20:07:43.485][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-12-30 20:07:43.486][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-12-30 20:07:43.487][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-30 20:07:43.489][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-30 20:07:43.490][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-12-30 20:07:43.491][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-12-30 20:07:43.492][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-12-30 20:07:43.494][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-12-30 20:07:43.495][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-30 20:07:43.496][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-12-30 20:07:43.497][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-12-30 20:07:43.499][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-30 20:07:43.500][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-12-30 20:07:43.501][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-12-30 20:07:43.502][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-12-30 20:07:43.504][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-12-30 20:07:43.505][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-12-30 20:07:43.506][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-12-30 20:07:43.507][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-12-30 20:07:43.509][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-12-30 20:07:43.510][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-12-30 20:07:43.511][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-12-30 20:07:43.512][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-12-30 20:07:43.514][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-12-30 20:07:43.515][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-12-30 20:07:43.516][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-12-30 20:07:43.517][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-12-30 20:07:43.519][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-12-30 20:07:43.520][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-12-30 20:07:43.521][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-12-30 20:07:43.522][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-12-30 20:07:43.524][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-12-30 20:07:43.525][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-12-30 20:07:43.526][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-12-30 20:07:43.528][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-12-30 20:07:43.529][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-12-30 20:07:43.530][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-12-30 20:07:43.531][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-12-30 20:07:43.533][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-12-30 20:07:43.534][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-12-30 20:07:43.535][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-12-30 20:07:43.536][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-12-30 20:07:43.538][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-12-30 20:07:43.539][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-12-30 20:07:43.540][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-12-30 20:07:43.541][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-12-30 20:07:43.543][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-12-30 20:07:43.544][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-12-30 20:07:43.545][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-12-30 20:07:43.547][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-12-30 20:07:43.548][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-12-30 20:07:43.549][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-12-30 20:07:43.550][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-12-30 20:07:43.552][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-12-30 20:07:43.553][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-12-30 20:07:43.554][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-12-30 20:07:43.556][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-12-30 20:07:43.557][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-12-30 20:07:43.558][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-12-30 20:07:43.560][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-30 20:07:43.561][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-30 20:07:43.562][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-12-30 20:07:43.564][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-12-30 20:07:43.565][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-12-30 20:07:43.566][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-12-30 20:07:43.568][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-12-30 20:07:43.569][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-12-30 20:07:43.570][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-12-30 20:07:43.571][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-12-30 20:07:43.573][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-12-30 20:07:43.574][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-12-30 20:07:43.575][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-12-30 20:07:43.577][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-12-30 20:07:43.578][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-12-30 20:07:43.579][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-12-30 20:07:43.580][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-12-30 20:07:43.582][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-12-30 20:07:43.583][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-12-30 20:07:43.584][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-30 20:07:43.585][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.587][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.605][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[2024-12-30 20:07:43.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.611][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.DEBUG[2024-12-30 20:07:43.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.645][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.DEBUG[2024-12-30 20:07:43.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.678][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[2024-12-30 20:07:43.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-30 20:07:43.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-30 20:07:43.690][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-12-30 20:07:43.692][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-12-30 20:07:43.693][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.694][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.695][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.696][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-30 20:07:43.697][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.698][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.699][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.700][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-12-30 20:07:43.701][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-12-30 20:07:43.702][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-30 20:07:43.702][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.703][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-12-30 20:07:43.704][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-30 20:07:43.705][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-12-30 20:07:43.705][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-12-30 20:07:43.705][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-12-30 20:07:43.705][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-12-30 20:07:43.705][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-12-30 20:07:43.705][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-12-30 20:07:43.705][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-12-30 20:07:43.705][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-12-30 20:07:43.705][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-12-30 20:07:43.705][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-12-30 20:07:43.705][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-12-30 20:07:43.706][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-12-30 20:07:43.707][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-30 20:07:43.707][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-30 20:07:43.707][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-30 20:07:43.708][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-12-30 20:07:43.709][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:43.710][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:43.711][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-30 20:07:43.712][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-30 20:07:43.712][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-30 20:07:43.713][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-30 20:07:43.714][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-30 20:07:43.714][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-12-30 20:07:43.715][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-30 20:07:43.716][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-30 20:07:43.717][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-12-30 20:07:43.718][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-12-30 20:07:43.718][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-12-30 20:07:43.719][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-30 20:07:43.720][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-30 20:07:43.722][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-12-30 20:07:43.723][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-30 20:07:43.725][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-30 20:07:43.726][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-30 20:07:43.729][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-12-30 20:07:43.730][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-12-30 20:07:43.731][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-12-30 20:07:43.733][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-12-30 20:07:43.734][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-30 20:07:43.735][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-30 20:07:43.736][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-12-30 20:07:43.737][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-12-30 20:07:43.738][biodb::testThat]
biodb.INFO [2024-12-30 20:07:43.739][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-12-30 20:07:43.740][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-30 20:07:43.741][biodb::testThat]
biodb.DEBUG[2024-12-30 20:07:43.744][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-12-30 20:07:43.747][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:43.748][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-12-30 20:07:43.749][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:43.751][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-12-30 20:07:43.754][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[2024-12-30 20:07:43.757][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-30 20:07:43.758][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-12-30 20:07:43.759][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:43.760][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-12-30 20:07:43.768][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-12-30 20:07:43.769][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-30 20:07:43.771][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-12-30 20:07:43.772][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-30 20:07:43.775][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2024-12-30 20:07:43.777][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-30 20:07:43.778][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-30 20:07:43.779][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-30 20:07:43.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-30 20:07:43.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-30 20:07:43.792][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:43.793][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:43.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.795][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:43.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:43.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.800][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:43.801][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:43.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.803][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.804][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-30 20:07:43.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-30 20:07:43.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.808][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:43.809][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:43.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.810][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.812][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-30 20:07:43.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-30 20:07:43.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.816][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-30 20:07:43.816][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-30 20:07:43.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.818][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.820][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-30 20:07:43.821][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-30 20:07:43.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.822][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.824][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:43.825][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:43.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.826][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.828][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:43.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-30 20:07:43.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.831][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:43.832][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:43.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.834][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.835][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-30 20:07:43.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-30 20:07:43.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.839][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:43.840][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:43.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.842][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:43.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-30 20:07:43.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.847][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:43.848][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:43.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.849][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.851][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-30 20:07:43.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-30 20:07:43.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.855][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:43.856][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:43.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.857][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.859][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-30 20:07:43.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-30 20:07:43.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.862][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:43.863][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:43.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.865][ef$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.866][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-30 20:07:43.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-30 20:07:43.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:43.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:43.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:43.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:43.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:43.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:43.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-30 20:07:43.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-30 20:07:43.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:43.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:43.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:43.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:43.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:43.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:43.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:43.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:43.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:43.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:43.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-30 20:07:43.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-30 20:07:43.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-30 20:07:43.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-30 20:07:43.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-30 20:07:43.906][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-12-30 20:07:43.910][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-12-30 20:07:43.911][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-12-30 20:07:43.912][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-12-30 20:07:43.912][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-12-30 20:07:43.913][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-30 20:07:43.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-30 20:07:43.915][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-30 20:07:43.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-30 20:07:43.916][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-12-30 20:07:43.917][FUN] Functions in observer 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 
 14.864   0.587  18.412

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn1.0100.0872.304
ChebiEntry0.1550.0050.158