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This page was generated on 2025-04-18 11:41 -0400 (Fri, 18 Apr 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_644.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" 4831
palomino7Windows Server 2022 Datacenterx644.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" 4573
lconwaymacOS 12.7.1 Montereyx86_644.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" 4599
kjohnson3macOS 13.7.1 Venturaarm644.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" 4553
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4570
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 206/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.14.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-04-17 13:40 -0400 (Thu, 17 Apr 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_21
git_last_commit: b8d718f
git_last_commit_date: 2025-04-15 12:39:10 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  

CHECK results for biodbChebi on palomino7

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: 1.14.0
Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings biodbChebi_1.14.0.tar.gz
StartedAt: 2025-04-18 00:01:02 -0400 (Fri, 18 Apr 2025)
EndedAt: 2025-04-18 00:07:13 -0400 (Fri, 18 Apr 2025)
EllapsedTime: 371.5 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings biodbChebi_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck'
* using R version 4.5.0 RC (2025-04-04 r88126 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'biodbChebi/DESCRIPTION' ... OK
* this is package 'biodbChebi' version '1.14.0'
* 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 whether package 'biodbChebi' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
          user system elapsed
ChebiConn 3.29   2.39   89.92
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'biodbChebi' ...
** this is package 'biodbChebi' version '1.14.0'
** 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 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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 [2025-04-18 00:05:47.407][biodb::testContext]
biodb.INFO [2025-04-18 00:05:47.410][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-18 00:05:47.411][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-04-18 00:05:47.413][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-18 00:05:47.414][biodb::testContext]
biodb.INFO [2025-04-18 00:05:47.422][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-04-18 00:05:47.424][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-04-18 00:05:47.447][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:05:47.448][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-04-18 00:05:47.449][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-04-18 00:05:47.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.454][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-04-18 00:05:47.470][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-04-18 00:05:47.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.474][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[2025-04-18 00:05:47.475][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-04-18 00:05:47.476][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-04-18 00:05:47.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.480][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-04-18 00:05:47.482][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-04-18 00:05:47.483][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-04-18 00:05:47.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.487][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-04-18 00:05:47.488][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-04-18 00:05:47.490][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-04-18 00:05:47.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.494][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-04-18 00:05:47.495][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-04-18 00:05:47.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.500][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-04-18 00:05:47.501][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-04-18 00:05:47.502][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-04-18 00:05:47.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.506][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-04-18 00:05:47.508][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-04-18 00:05:47.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.512][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-04-18 00:05:47.513][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-04-18 00:05:47.514][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-04-18 00:05:47.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.519][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-04-18 00:05:47.520][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-04-18 00:05:47.521][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-04-18 00:05:47.522][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-04-18 00:05:47.524][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-04-18 00:05:47.525][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-04-18 00:05:47.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.528][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[2025-04-18 00:05:47.529][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-04-18 00:05:47.531][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-04-18 00:05:47.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.535][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-04-18 00:05:47.536][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-04-18 00:05:47.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.539][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[2025-04-18 00:05:47.540][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-04-18 00:05:47.542][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-04-18 00:05:47.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.547][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-04-18 00:05:47.549][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-04-18 00:05:47.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.556][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-04-18 00:05:47.558][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-04-18 00:05:47.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.565][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-04-18 00:05:47.567][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-04-18 00:05:47.572][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-04-18 00:05:47.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.577][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[2025-04-18 00:05:47.579][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-04-18 00:05:47.581][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-04-18 00:05:47.583][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-04-18 00:05:47.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.594][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-04-18 00:05:47.627][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.641][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-04-18 00:05:47.642][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.644][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:05:47.650][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.652][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.653][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.655][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.657][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-18 00:05:47.659][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:05:47.660][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.662][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-04-18 00:05:47.664][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:05:47.666][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.668][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.670][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:05:47.670][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:05:47.670][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:05:47.670][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-18 00:05:47.670][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-18 00:05:47.672][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:05:47.674][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:05:47.675][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:05:47.677][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:05:47.679][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:05:47.681][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:05:47.682][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.684][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.686][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:05:47.688][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:05:47.690][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.691][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.693][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-04-18 00:05:47.696][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.698][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-04-18 00:05:47.700][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.701][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:05:47.702][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.704][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.705][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.706][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.707][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-18 00:05:47.708][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:05:47.710][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.711][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-04-18 00:05:47.712][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:05:47.713][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.714][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.716][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:05:47.716][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:05:47.716][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:05:47.716][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-18 00:05:47.716][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-18 00:05:47.717][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:05:47.718][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:05:47.719][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:05:47.720][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:05:47.721][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:05:47.722][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:05:47.724][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.725][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.726][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:05:47.727][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:05:47.728][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.729][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.731][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-04-18 00:05:47.733][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.734][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-04-18 00:05:47.735][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.736][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:05:47.737][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.738][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.740][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.741][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.742][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-18 00:05:47.743][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:05:47.744][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.746][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-04-18 00:05:47.747][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:05:47.748][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.749][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.750][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.751][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:05:47.753][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:05:47.754][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:05:47.755][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:05:47.756][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:05:47.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:05:47.758][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.759][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.761][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:05:47.762][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:05:47.763][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.764][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.765][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-04-18 00:05:47.767][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.768][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-04-18 00:05:47.770][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.771][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:05:47.772][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.773][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.774][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.775][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.777][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-18 00:05:47.778][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:05:47.779][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.780][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-04-18 00:05:47.781][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:05:47.783][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.784][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:47.785][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.786][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:05:47.787][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:05:47.788][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:05:47.790][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:05:47.791][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:05:47.792][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:05:47.793][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:05:47.794][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.795][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:05:47.796][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:05:47.797][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:47.799][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:05:47.802][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:05:47.803][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.804][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[2025-04-18 00:05:47.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.810][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[2025-04-18 00:05:47.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.821][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[2025-04-18 00:05:47.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.837][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[2025-04-18 00:05:47.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.858][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[2025-04-18 00:05:47.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.864][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[2025-04-18 00:05:47.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.885][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[2025-04-18 00:05:47.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:47.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:47.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:47.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:47.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:47.903][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-04-18 00:05:47.907][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-04-18 00:05:47.908][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-04-18 00:05:47.910][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-04-18 00:05:47.912][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-18 00:05:47.913][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-18 00:05:47.915][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-04-18 00:05:47.916][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-04-18 00:05:47.918][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-04-18 00:05:47.919][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-18 00:05:47.921][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-18 00:05:47.922][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-04-18 00:05:47.924][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-04-18 00:05:47.926][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-04-18 00:05:47.927][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-04-18 00:05:47.929][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-18 00:05:47.930][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-04-18 00:05:47.932][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-04-18 00:05:47.933][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-18 00:05:47.935][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-04-18 00:05:47.936][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-04-18 00:05:47.938][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-04-18 00:05:47.939][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-04-18 00:05:47.941][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-04-18 00:05:47.943][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-04-18 00:05:47.944][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-04-18 00:05:47.946][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-04-18 00:05:47.947][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-04-18 00:05:47.949][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-04-18 00:05:47.950][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-04-18 00:05:47.953][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-04-18 00:05:47.955][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-04-18 00:05:47.957][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-04-18 00:05:47.959][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-04-18 00:05:47.961][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-04-18 00:05:47.964][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-04-18 00:05:47.966][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-04-18 00:05:47.969][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-04-18 00:05:47.971][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-04-18 00:05:47.973][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-04-18 00:05:47.975][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-04-18 00:05:47.978][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-04-18 00:05:47.980][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-04-18 00:05:47.982][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-04-18 00:05:47.984][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-04-18 00:05:47.987][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-04-18 00:05:47.989][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-04-18 00:05:47.991][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-04-18 00:05:47.994][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-04-18 00:05:47.996][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-04-18 00:05:47.998][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-04-18 00:05:48.000][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-04-18 00:05:48.001][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-04-18 00:05:48.003][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-04-18 00:05:48.005][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-04-18 00:05:48.006][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-04-18 00:05:48.008][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-04-18 00:05:48.009][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-04-18 00:05:48.011][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-04-18 00:05:48.013][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-04-18 00:05:48.014][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-04-18 00:05:48.016][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-04-18 00:05:48.017][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-04-18 00:05:48.019][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-04-18 00:05:48.021][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-04-18 00:05:48.022][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-04-18 00:05:48.024][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-18 00:05:48.025][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-18 00:05:48.027][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-04-18 00:05:48.029][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-04-18 00:05:48.030][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-04-18 00:05:48.032][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-04-18 00:05:48.033][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-04-18 00:05:48.035][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-04-18 00:05:48.037][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-04-18 00:05:48.038][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-04-18 00:05:48.040][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-04-18 00:05:48.041][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-04-18 00:05:48.043][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-04-18 00:05:48.045][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-04-18 00:05:48.046][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-04-18 00:05:48.048][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-04-18 00:05:48.049][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-04-18 00:05:48.077][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-04-18 00:05:48.079][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-04-18 00:05:48.082][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:05:48.084][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.086][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.111][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[2025-04-18 00:05:48.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:48.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:05:48.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.239][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.DEBUG[2025-04-18 00:05:48.242][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-04-18 00:05:48.251][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-04-18 00:05:48.254][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:48.255][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-04-18 00:05:48.256][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:48.258][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:05:48.259][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:48.260][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:05:48.262][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:48.263][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-04-18 00:05:48.264][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-04-18 00:05:48.266][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:05:48.267][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:48.268][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-04-18 00:05:48.269][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:05:48.271][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-04-18 00:05:48.271][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-04-18 00:05:48.271][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-04-18 00:05:48.271][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-04-18 00:05:48.271][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-04-18 00:05:48.271][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-04-18 00:05:48.271][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-04-18 00:05:48.271][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-04-18 00:05:48.271][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-04-18 00:05:48.271][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-04-18 00:05:48.271][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-04-18 00:05:48.272][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-04-18 00:05:48.274][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:05:48.274][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:05:48.274][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:05:48.275][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-04-18 00:05:48.276][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:05:48.277][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:05:48.279][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:05:48.280][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:05:48.281][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:05:48.282][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:05:48.284][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:05:48.284][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-04-18 00:05:48.285][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:05:48.286][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:05:48.287][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-04-18 00:05:48.289][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-04-18 00:05:48.289][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-04-18 00:05:48.295][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-18 00:05:48.297][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-18 00:05:48.299][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-04-18 00:05:48.301][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-18 00:05:48.302][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-18 00:05:48.304][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-18 00:05:48.363][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-04-18 00:05:48.366][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-04-18 00:05:48.372][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-04-18 00:05:48.378][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-04-18 00:05:48.384][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-18 00:05:48.386][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-18 00:05:48.389][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-04-18 00:05:48.391][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-04-18 00:05:48.405][biodb::testThat]
biodb.INFO [2025-04-18 00:05:48.407][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-04-18 00:05:48.408][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:05:48.409][biodb::testThat]
biodb.TRACE[2025-04-18 00:05:48.435][loadFileContents] Loaded 1 files from cache: [1]: "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-04-18 00:05:48.437][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:05:48.441][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:05:48.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:48.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:48.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:48.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:48.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:48.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:48.475][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.TRACE[2025-04-18 00:05:48.487][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.489][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.493][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.526][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:48.529][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:48.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.533][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.580][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:48.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:48.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.589][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:48.591][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:48.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.595][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.598][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:48.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:48.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.606][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:48.608][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:48.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.612][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.614][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:48.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:48.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.622][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:48.624][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:48.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.628][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:48.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:48.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.638][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:48.640][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:48.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.644][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.646][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:48.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:48.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.651][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:05:48.652][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:48.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.664][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.665][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:05:48.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:48.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.670][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:48.672][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:48.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.674][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:48.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:48.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.681][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:48.682][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:48.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.684][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:48.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:48.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.691][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:48.692][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:48.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.694][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.696][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:48.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:48.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.701][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:48.702][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:48.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.704][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.706][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:48.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:48.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:48.785][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-04-18 00:05:48.789][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:48.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:48.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:48.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:48.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:48.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:48.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:48.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:48.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:48.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:48.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:48.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:48.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.842][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-18 00:05:48.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-18 00:05:48.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.847][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-18 00:05:48.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-18 00:05:48.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.852][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-18 00:05:48.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-18 00:05:48.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.857][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-18 00:05:48.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-18 00:05:48.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:48.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:48.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:48.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:48.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:48.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.021][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.022][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.025][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.060][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.087][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.092][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.093][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.095][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.096][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.111][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:49.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:49.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.116][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:49.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:49.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.121][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:49.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:49.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.125][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:49.127][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:49.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.129][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.130][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:49.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:49.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.159][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.160][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.162][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.200][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.201][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.203][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.220][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:49.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:49.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.225][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:49.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:49.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.231][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:49.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:49.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.235][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:49.237][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:49.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.239][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.240][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:49.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:49.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.256][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.261][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.266][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.271][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.273][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.275][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.276][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.292][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.297][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.302][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.307][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.309][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.311][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.312][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.327][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:49.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:49.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.332][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:49.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:49.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.337][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:49.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:49.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.342][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:49.343][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:49.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.346][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.348][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:49.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:49.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.383][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.393][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.394][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.396][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:49.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:49.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.417][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:49.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:49.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:49.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:49.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.427][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:49.428][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:49.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.430][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.431][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:49.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:49.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.446][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.447][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.450][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.456][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:49.458][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:49.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.460][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.467][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:49.468][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:49.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.470][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.477][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:49.478][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:49.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.481][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.488][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.489][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.492][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.499][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.500][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.503][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.510][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.511][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.514][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.523][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.525][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.529][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.540][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.542][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.546][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.557][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.559][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.563][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.581][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:49.583][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:49.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.587][ef$get] fields variable is a list.
biodb.INFO [2025-04-18 00:05:49.607][biodb::testThat]
biodb.INFO [2025-04-18 00:05:49.609][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-04-18 00:05:49.611][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:05:49.613][biodb::testThat]
biodb.DEBUG[2025-04-18 00:05:49.631][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-04-18 00:05:49.638][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:05:49.644][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-04-18 00:05:49.646][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:05:49.648][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-04-18 00:05:49.650][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:05:49.670][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:05:49.672][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:05:49.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:49.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:49.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:49.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:49.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:49.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:49.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:05:49.690][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.691][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.693][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.713][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:49.715][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:49.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.717][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.719][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:49.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:49.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.724][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:49.725][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:49.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.727][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.729][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:49.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:49.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.740][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:49.741][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:49.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.743][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:49.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:49.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.750][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.751][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.753][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:49.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.760][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.761][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.763][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.765][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:49.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.770][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:05:49.771][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.773][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.775][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:05:49.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:49.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.780][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.781][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.783][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:49.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.790][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.791][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.793][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.795][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.800][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:49.801][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.803][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.805][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:49.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:49.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.810][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:49.811][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:49.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.813][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.815][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:49.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:49.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:49.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:49.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:49.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:49.868][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-04-18 00:05:49.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-04-18 00:05:49.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-04-18 00:05:49.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-04-18 00:05:49.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-04-18 00:05:49.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-04-18 00:05:49.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-04-18 00:05:49.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-04-18 00:05:49.896][biodb::testThat]
biodb.INFO [2025-04-18 00:05:49.897][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-04-18 00:05:49.899][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:05:49.904][biodb::testThat]
biodb.TRACE[2025-04-18 00:05:49.908][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.910][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.912][ef$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:49.914][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-04-18 00:05:49.944][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.950][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:49.955][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:49.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:49.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:49.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:49.964][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-04-18 00:05:49.968][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-04-18 00:05:49.987][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:05:50.001][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-04-18 00:05:50.003][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:05:50.006][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-04-18 00:05:50.032][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[2025-04-18 00:05:50.036][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:05:50.038][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:05:50.040][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:05:50.583][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:05:50.958][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:05:50.961][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-04-18 00:05:50.990][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-04-18 00:05:51.005][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-04-18 00:05:51.024][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:51.025][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:51.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.028][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.029][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:51.030][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:51.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.033][ef$get] fields variable is a list.
biodb.INFO [2025-04-18 00:05:51.040][biodb::testThat]
biodb.INFO [2025-04-18 00:05:51.041][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-04-18 00:05:51.042][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:05:51.043][biodb::testThat]
biodb.TRACE[2025-04-18 00:05:51.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:51.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:51.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:51.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:51.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.081][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:51.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:51.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:51.141][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:05:51.145][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:05:51.147][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-04-18 00:05:51.148][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:05:51.152][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-04-18 00:05:51.178][biodb::testThat]
biodb.INFO [2025-04-18 00:05:51.179][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-04-18 00:05:51.180][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:05:51.181][biodb::testThat]
biodb.TRACE[2025-04-18 00:05:51.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:51.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:51.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:51.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:51.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:51.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:51.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.223][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:51.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:51.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:51.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:51.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:51.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:51.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.238][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-18 00:05:51.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-18 00:05:51.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.242][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-18 00:05:51.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-18 00:05:51.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.247][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-18 00:05:51.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-18 00:05:51.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.252][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-18 00:05:51.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-18 00:05:51.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:51.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:51.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.277][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:51.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:51.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.282][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:51.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:51.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:51.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:51.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:51.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:51.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:51.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:51.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.301][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-18 00:05:51.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-18 00:05:51.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.306][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-18 00:05:51.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-18 00:05:51.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.316][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-18 00:05:51.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-18 00:05:51.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:51.320][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-18 00:05:51.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-18 00:05:51.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:51.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-04-18 00:05:51.335][biodb::testThat]
biodb.INFO [2025-04-18 00:05:51.336][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-04-18 00:05:51.337][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:05:51.339][biodb::testThat]
biodb.INFO [2025-04-18 00:05:51.350][biodb::testThat]
biodb.INFO [2025-04-18 00:05:51.352][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-04-18 00:05:51.353][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:05:51.354][biodb::testThat]
biodb.INFO [2025-04-18 00:05:51.366][biodb::testThat]
biodb.INFO [2025-04-18 00:05:51.367][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-04-18 00:05:51.369][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:05:51.370][biodb::testThat]
biodb.DEBUG[2025-04-18 00:05:51.374][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-04-18 00:05:51.787][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-04-18 00:05:52.424][biodb::testThat]
biodb.INFO [2025-04-18 00:05:52.426][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-04-18 00:05:52.427][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:05:52.428][biodb::testThat]
biodb.DEBUG[2025-04-18 00:05:52.730][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[2025-04-18 00:05:53.034][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:53.036][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:53.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:53.038][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:53.040][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:53.041][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:53.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:53.043][ef$get] fields variable is a list.
biodb.INFO [2025-04-18 00:05:53.046][biodb::testThat]
biodb.INFO [2025-04-18 00:05:53.047][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-04-18 00:05:53.048][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:05:53.049][biodb::testThat]
biodb.TRACE[2025-04-18 00:05:53.066][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:53.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:53.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:53.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:53.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:53.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:53.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:53.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:53.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:53.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:53.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:53.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:53.201][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:05:53.205][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:05:53.206][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-04-18 00:05:53.208][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:05:53.211][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-04-18 00:05:53.279][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:05:53.283][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:05:53.285][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-04-18 00:05:53.286][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:05:53.289][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-04-18 00:05:53.310][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-18 00:05:53.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-18 00:05:53.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:53.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:53.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:53.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:53.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:53.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:53.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:53.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:53.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:53.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:53.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:53.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:53.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:53.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:53.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:53.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:53.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:53.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:53.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:53.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:53.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:53.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:53.386][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:05:53.390][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:05:53.391][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-04-18 00:05:53.393][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:05:53.416][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-04-18 00:05:53.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:53.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:53.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:53.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:53.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:53.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:53.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:53.434][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-04-18 00:05:53.480][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:05:53.482][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-04-18 00:05:53.484][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:05:53.485][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:05:53.486][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:05:53.488][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:05:53.489][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:05:53.490][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:05:53.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:53.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:53.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:53.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:53.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:53.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:53.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:53.508][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-04-18 00:05:53.522][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:05:53.524][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:05:53.537][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-04-18 00:05:53.857][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-04-18 00:05:54.152][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:05:54.155][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-04-18 00:05:54.192][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-04-18 00:05:54.217][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-04-18 00:05:54.227][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:05:54.229][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:05:54.231][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:05:54.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:54.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:54.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:54.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:54.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:54.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:54.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:05:54.248][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:54.250][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:54.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.252][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:54.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:54.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.258][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:54.260][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:54.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.262][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.263][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:54.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:54.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.268][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:54.270][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:54.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.272][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.274][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:54.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:54.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.279][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:54.280][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:54.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.282][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.284][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:54.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:54.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.289][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:54.290][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:54.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.292][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:54.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:54.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.299][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:54.300][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:54.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.302][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.304][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:05:54.305][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.307][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.309][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:05:54.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.314][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:54.315][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:54.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.317][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:54.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:54.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.324][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:54.325][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:54.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.327][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.329][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:54.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:54.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.489][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:54.490][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:54.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.493][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.494][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:54.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:54.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.499][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:54.500][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:54.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.503][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.504][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:54.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:54.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:54.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:54.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:54.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:54.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:54.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:54.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:54.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:54.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:54.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:54.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:54.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:54.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:54.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:54.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:54.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:54.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:54.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:54.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:54.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:54.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:54.556][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-04-18 00:05:54.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:54.581][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:05:54.585][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:05:54.587][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-04-18 00:05:54.589][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:05:54.631][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-04-18 00:05:54.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:54.654][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:54.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:54.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:54.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:54.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:54.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:05:54.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:54.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:54.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:54.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:54.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:54.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:54.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:54.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:54.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:54.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:54.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:54.706][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-04-18 00:05:54.707][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:05:54.709][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-04-18 00:05:54.712][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:05:54.714][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:05:54.715][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:05:54.717][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:05:54.718][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:05:54.720][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:05:54.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:54.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:54.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:54.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:54.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:54.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:54.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:54.754][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-04-18 00:05:54.758][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:05:54.759][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:05:54.761][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-04-18 00:05:55.090][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-04-18 00:05:55.376][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:05:55.379][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-04-18 00:05:55.589][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-04-18 00:05:56.111][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-04-18 00:05:56.121][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:05:56.123][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:05:56.125][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:05:56.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:56.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:56.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:56.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:56.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:56.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:56.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:05:56.145][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:56.146][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:56.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.149][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:56.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:56.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.156][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:56.157][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:56.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.160][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.161][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:56.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:56.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.167][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:56.168][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:56.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.171][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.172][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:56.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:56.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.178][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:56.179][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:56.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.182][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:56.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:56.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.189][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:56.190][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:56.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.193][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:56.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:56.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.200][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:56.201][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:56.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.204][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.205][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:05:56.207][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.209][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.211][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:05:56.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.216][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:56.218][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:56.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.220][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:56.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:56.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.227][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:56.228][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:56.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.231][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.233][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:56.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:56.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.240][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:56.242][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:56.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.246][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.248][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:56.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:56.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.255][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:56.256][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:56.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.259][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.260][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:56.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:56.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:56.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:56.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:56.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:56.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:56.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:56.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:56.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:56.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:56.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:56.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:56.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:56.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:56.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:56.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:56.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:56.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:56.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:56.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:56.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:56.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:56.324][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-04-18 00:05:56.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:56.375][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:05:56.379][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:05:56.381][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-04-18 00:05:56.382][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:05:56.385][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-04-18 00:05:56.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:56.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:56.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:56.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:56.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:56.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:56.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:05:56.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:56.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:56.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:56.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:56.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:56.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:56.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:56.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:56.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:56.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:56.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:56.430][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-04-18 00:05:56.431][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:05:56.433][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-04-18 00:05:56.434][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:05:56.436][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:05:56.437][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:05:56.438][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:05:56.440][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:05:56.441][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:05:56.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:56.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:56.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:56.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:56.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:56.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:56.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:56.458][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2025-04-18 00:05:56.461][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:05:56.462][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:05:56.464][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2025-04-18 00:05:56.761][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2025-04-18 00:05:57.050][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:05:57.053][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2025-04-18 00:05:57.199][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2025-04-18 00:05:57.235][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2025-04-18 00:05:57.316][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:05:57.319][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:05:57.322][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:05:57.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:57.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:57.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:57.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:57.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:57.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:57.343][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[2025-04-18 00:05:57.345][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:57.348][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:57.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.350][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:57.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:57.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.357][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:57.358][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:57.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.361][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.362][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:57.363][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:57.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.366][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.367][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:57.369][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:57.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.371][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.372][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:57.374][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:57.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.376][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.377][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:57.379][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:57.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.381][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.383][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:05:57.384][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:57.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.386][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.388][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:57.389][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:57.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.391][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.393][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:57.394][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:57.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.396][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:57.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:57.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.403][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:57.404][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:57.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.406][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.409][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:57.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:57.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.416][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:57.418][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:57.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.420][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:57.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:57.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:57.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:57.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:57.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:57.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:57.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:57.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:57.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:57.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:57.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:57.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:57.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:57.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:57.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:57.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:57.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:57.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:57.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:57.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:57.472][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-04-18 00:05:57.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:57.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:57.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:57.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:57.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:57.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:57.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:57.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:57.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:57.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:57.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:57.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:57.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:57.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:57.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:57.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:57.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:57.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:57.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:57.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:57.519][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-04-18 00:05:57.521][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:05:57.523][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-04-18 00:05:57.525][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:05:57.527][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:05:57.528][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:05:57.530][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:05:57.531][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:05:57.532][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:05:57.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:57.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:57.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:57.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:57.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:57.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:57.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:57.550][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2025-04-18 00:05:57.555][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:05:57.557][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:05:57.559][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2025-04-18 00:05:57.875][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2025-04-18 00:05:58.167][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:05:58.172][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2025-04-18 00:05:58.593][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2025-04-18 00:05:58.624][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2025-04-18 00:05:58.655][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:05:58.657][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:05:58.659][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:05:58.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:58.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:58.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:58.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:58.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:58.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:58.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:05:58.677][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:58.679][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:58.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.681][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:58.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:58.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.687][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:58.689][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:58.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.691][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.692][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:58.694][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:58.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.696][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.698][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:58.699][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:58.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.702][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.704][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:58.705][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:58.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.708][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.709][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:58.710][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:58.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.713][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.714][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:05:58.716][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:58.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.718][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.719][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:58.721][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:58.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.723][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.724][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:58.726][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:58.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.728][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:58.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:58.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.735][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:58.736][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:58.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.738][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.740][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:58.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:58.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.745][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:58.746][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:58.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.749][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:58.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:58.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:58.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:58.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:58.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:58.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:58.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:58.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:58.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:58.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:58.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:58.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:58.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:58.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:58.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:58.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:58.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:58.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:58.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:58.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:58.808][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-04-18 00:05:58.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:58.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:58.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:58.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:58.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:58.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:58.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:58.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:58.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:58.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:58.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:58.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:58.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:58.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:58.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:58.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:58.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:58.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:58.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:58.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:58.847][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-04-18 00:05:58.848][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:05:58.850][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-04-18 00:05:58.851][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:05:58.853][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:05:58.854][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:05:58.855][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:05:58.857][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:05:58.858][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:05:58.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:58.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:58.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:58.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:58.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:58.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:58.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:58.875][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2025-04-18 00:05:58.878][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:05:58.879][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:05:58.881][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2025-04-18 00:05:59.179][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2025-04-18 00:05:59.464][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:05:59.467][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2025-04-18 00:05:59.590][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2025-04-18 00:05:59.612][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2025-04-18 00:05:59.634][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:05:59.636][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:05:59.637][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:05:59.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:59.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:59.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:59.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:59.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:59.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:59.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:05:59.655][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:59.656][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:59.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.658][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:59.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:59.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.665][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:05:59.666][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:05:59.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.668][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.670][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:05:59.671][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:05:59.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.673][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.675][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:05:59.676][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:05:59.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.679][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.680][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:05:59.681][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:05:59.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.684][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.685][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:59.686][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:05:59.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.689][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.690][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:05:59.691][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:59.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.694][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.695][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:59.696][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:05:59.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.699][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.700][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:59.701][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:59.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.704][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:05:59.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:05:59.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.711][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:59.712][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:59.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.714][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.715][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:05:59.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:05:59.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.720][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:05:59.722][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:05:59.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.724][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:59.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:59.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:59.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:59.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:59.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:59.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:05:59.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:05:59.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:59.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:59.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:59.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:59.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:59.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:59.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:59.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:59.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:59.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:59.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:05:59.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:05:59.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:59.774][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-04-18 00:05:59.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:59.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:59.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:59.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:59.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:59.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:59.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:59.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:59.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:05:59.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:59.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:05:59.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:05:59.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:05:59.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:59.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:59.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:59.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:59.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:59.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:59.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:59.813][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-04-18 00:05:59.815][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:05:59.816][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-04-18 00:05:59.818][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:05:59.820][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:05:59.821][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:05:59.822][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:05:59.823][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:05:59.825][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:05:59.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:05:59.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:05:59.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:05:59.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:05:59.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:05:59.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:05:59.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:05:59.842][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2025-04-18 00:05:59.845][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:05:59.847][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:05:59.848][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2025-04-18 00:06:00.165][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2025-04-18 00:06:00.464][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:00.467][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2025-04-18 00:06:00.507][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2025-04-18 00:06:00.568][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2025-04-18 00:06:00.592][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:00.594][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:00.596][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:00.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:00.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:00.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:00.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:00.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:00.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:00.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:00.614][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:00.615][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:00.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.617][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:00.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:00.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.624][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:00.625][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:00.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.627][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.629][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:00.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:00.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.634][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:00.636][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:00.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.638][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.640][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:00.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:00.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.645][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:00.646][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:00.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.648][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:00.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:00.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.655][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:00.656][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:00.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.659][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.660][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:00.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:00.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.665][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:00.667][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:00.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.669][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.676][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:00.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:00.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.685][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:00.686][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:00.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.689][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.690][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:00.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:00.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.695][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:00.696][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:00.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.699][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:00.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:00.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.705][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:00.706][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:00.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.708][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.710][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:00.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:00.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.715][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:00.716][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:00.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.719][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.720][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:00.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:00.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.725][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:00.726][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:00.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.729][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.730][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:00.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:00.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:00.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:00.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:00.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:00.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:00.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:00.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:00.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:00.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:00.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:00.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:00.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:00.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:00.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:00.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:00.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:00.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:00.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:00.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:00.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:00.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:00.783][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-04-18 00:06:00.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:00.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:00.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:00.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:00.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:00.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:00.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:00.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:00.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:00.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:00.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:00.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:00.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:00.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:00.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:00.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:00.814][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-04-18 00:06:00.815][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:00.817][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-04-18 00:06:00.818][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:00.820][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:00.821][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:00.822][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:00.824][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:00.825][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:00.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:00.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:00.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:00.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:00.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:00.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:00.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:00.842][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2025-04-18 00:06:00.845][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:00.847][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:00.848][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2025-04-18 00:06:01.161][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2025-04-18 00:06:01.453][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:01.456][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2025-04-18 00:06:01.477][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2025-04-18 00:06:01.498][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2025-04-18 00:06:01.930][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:01.932][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:01.933][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:01.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:01.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:01.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:01.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:01.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:01.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:01.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:01.958][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:01.959][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:01.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:01.962][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:01.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:01.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:01.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:01.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:01.968][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:01.970][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:01.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:01.972][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:01.973][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:01.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:01.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:01.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:01.978][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:01.980][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:01.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:01.982][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:01.984][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:01.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:01.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:01.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:01.989][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:01.990][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:01.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:01.992][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:01.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:01.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:01.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:01.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:01.999][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:02.000][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:02.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.003][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:02.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:02.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.009][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:02.010][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:02.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.013][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.014][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:02.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:02.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.019][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:02.020][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:02.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.023][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.024][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:02.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:02.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.029][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:02.030][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:02.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.033][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:02.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:02.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.039][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:02.040][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:02.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.043][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.044][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:02.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:02.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.049][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:02.051][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:02.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.053][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.054][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:02.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:02.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.059][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:02.061][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:02.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.063][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.064][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:02.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:02.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:02.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:02.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:02.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:02.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:02.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:02.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:02.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:02.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:02.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:02.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:02.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:02.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:02.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:02.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:02.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:02.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:02.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:02.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:02.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:02.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:02.118][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-04-18 00:06:02.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:02.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:02.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:02.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:02.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:02.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:02.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:02.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:02.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:02.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:02.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:02.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:02.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:02.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:02.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:02.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:02.154][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-04-18 00:06:02.155][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:02.157][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-04-18 00:06:02.158][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:02.160][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:02.161][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:02.162][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:02.164][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:02.165][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:02.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:02.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:02.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:02.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:02.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:02.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:02.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:02.183][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2025-04-18 00:06:02.186][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:02.187][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:02.189][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2025-04-18 00:06:02.490][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2025-04-18 00:06:02.788][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:02.795][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2025-04-18 00:06:03.157][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2025-04-18 00:06:03.192][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2025-04-18 00:06:03.204][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:03.205][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:03.207][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:03.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:03.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:03.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:03.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:03.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:03.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:03.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:03.224][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:03.226][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:03.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.228][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:03.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:03.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.235][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:03.236][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:03.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.238][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.240][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:03.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:03.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.245][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:03.246][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:03.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.249][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.250][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:03.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:03.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.255][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:03.256][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:03.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.259][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:03.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:03.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.265][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:03.267][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:03.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.269][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:03.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:03.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.275][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:03.277][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:03.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.279][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.281][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:03.282][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:03.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.284][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.286][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:03.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:03.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.291][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:03.292][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:03.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.294][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:03.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:03.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.301][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:03.302][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:03.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.305][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.307][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:03.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:03.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.312][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:03.314][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:03.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.316][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.317][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:03.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:03.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.323][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:03.324][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:03.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.326][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.328][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:03.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:03.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:03.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:03.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:03.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:03.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:03.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:03.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:03.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:03.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:03.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:03.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:03.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:03.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:03.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:03.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:03.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:03.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:03.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:03.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:03.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:03.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:03.383][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-04-18 00:06:03.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:03.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:03.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:03.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:03.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:03.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:03.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:03.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:03.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:03.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:03.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:03.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:03.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:03.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:03.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:03.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:03.429][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-04-18 00:06:03.430][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:03.432][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-04-18 00:06:03.446][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:03.448][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:03.449][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:03.450][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:03.452][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:03.453][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:03.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:03.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:03.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:03.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:03.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:03.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:03.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:03.471][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2025-04-18 00:06:03.475][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:03.476][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:03.477][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2025-04-18 00:06:03.789][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2025-04-18 00:06:04.088][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:04.092][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2025-04-18 00:06:04.122][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2025-04-18 00:06:04.154][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2025-04-18 00:06:04.301][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:04.303][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:04.305][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:04.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:04.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:04.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:04.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:04.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:04.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:04.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:04.324][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:04.325][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:04.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.327][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:04.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:04.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.334][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:04.335][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:04.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.338][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.341][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:04.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:04.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.349][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:04.351][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:04.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.353][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.355][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:04.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:04.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.360][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:04.361][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:04.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.363][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.365][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:04.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:04.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.371][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:04.373][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:04.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.377][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.379][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:04.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:04.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.387][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:04.389][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:04.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.393][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.395][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:04.397][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:04.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.401][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.403][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:04.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:04.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.411][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:04.413][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:04.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.417][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:04.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:04.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.427][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:04.429][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:04.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.433][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:04.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:04.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.442][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:04.443][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:04.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.445][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.447][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:04.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:04.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.452][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:04.453][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:04.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.455][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.457][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:04.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:04.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:04.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:04.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:04.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:04.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:04.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:04.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:04.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:04.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:04.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:04.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:04.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:04.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:04.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:04.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:04.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:04.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:04.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:04.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:04.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:04.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:04.510][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-04-18 00:06:04.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:04.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:04.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:04.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:04.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:04.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:04.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:04.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:04.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:04.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:04.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:04.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:04.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:04.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:04.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:04.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:04.717][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-04-18 00:06:04.718][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:04.720][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-04-18 00:06:04.722][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:04.723][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:04.724][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:04.725][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:04.727][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:04.728][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:04.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:04.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:04.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:04.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:04.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:04.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:04.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:04.745][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2025-04-18 00:06:04.748][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:04.749][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:04.751][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2025-04-18 00:06:05.054][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2025-04-18 00:06:05.342][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:05.345][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2025-04-18 00:06:05.363][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2025-04-18 00:06:05.387][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2025-04-18 00:06:05.400][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:05.403][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:05.406][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:05.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:05.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:05.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:05.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:05.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:05.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:05.430][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[2025-04-18 00:06:05.434][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:05.436][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:05.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.440][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:05.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:05.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.451][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:05.453][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:05.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.457][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.459][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:05.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:05.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.467][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:05.469][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:05.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.472][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.474][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:05.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:05.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.482][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:05.484][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:05.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.488][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:05.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:05.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.497][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:05.499][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:05.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.503][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:05.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:05.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.513][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:05.515][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:05.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.519][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.521][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:05.523][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:05.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.527][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.529][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:05.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:05.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.536][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:05.538][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:05.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.542][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:05.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:05.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.551][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:05.553][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:05.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.557][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:05.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:05.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.566][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:05.568][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:05.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.572][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.573][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:05.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:05.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.578][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:05.579][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:05.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.583][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.585][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:05.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:05.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:05.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:05.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:05.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:05.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:05.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:05.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:05.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:05.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:05.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:05.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:05.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:05.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:05.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:05.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:05.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:05.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:05.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:05.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:05.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:05.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:05.677][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-04-18 00:06:05.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:05.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:05.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:05.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:05.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:05.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:05.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:05.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:05.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:05.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:05.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:05.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:05.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:05.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:05.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:05.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:05.727][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-04-18 00:06:05.729][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:05.731][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-04-18 00:06:05.733][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:05.734][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:05.735][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:05.737][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:05.738][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:05.739][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:05.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:05.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:05.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:05.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:05.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:05.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:05.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:05.758][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2025-04-18 00:06:05.762][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:05.763][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:05.764][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2025-04-18 00:06:06.071][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2025-04-18 00:06:06.366][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:06.369][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2025-04-18 00:06:08.690][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2025-04-18 00:06:08.875][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2025-04-18 00:06:09.125][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:09.127][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:09.128][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:09.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:09.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:09.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:09.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:09.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:09.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:09.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:09.153][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:09.154][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:09.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.156][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:09.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:09.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.163][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:09.164][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:09.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.166][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.168][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:09.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:09.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.173][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:09.174][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:09.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.176][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.178][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:09.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:09.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.183][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:09.184][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:09.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.186][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:09.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:09.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.192][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:09.194][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:09.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.196][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:09.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:09.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.202][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:09.204][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:09.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.206][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.207][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:09.209][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:09.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.211][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.212][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:09.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:09.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.217][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:09.219][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:09.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.221][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:09.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:09.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.227][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:09.229][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:09.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.231][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.233][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:09.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:09.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.238][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:09.239][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:09.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.241][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.252][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:09.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:09.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.257][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:09.259][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:09.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.261][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.262][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:09.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:09.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:09.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:09.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:09.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:09.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:09.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:09.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:09.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:09.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:09.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:09.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:09.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:09.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:09.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:09.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:09.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:09.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:09.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:09.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:09.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:09.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:09.315][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-04-18 00:06:09.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:09.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:09.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:09.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:09.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:09.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:09.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:09.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:09.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:09.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:09.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:09.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:09.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:09.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:09.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:09.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:09.350][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-04-18 00:06:09.351][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:09.353][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-04-18 00:06:09.355][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:09.356][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:09.357][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:09.359][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:09.360][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:09.361][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:09.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:09.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:09.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:09.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:09.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:09.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:09.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:09.378][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2025-04-18 00:06:09.381][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:09.383][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:09.384][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2025-04-18 00:06:09.680][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2025-04-18 00:06:09.981][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:09.984][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2025-04-18 00:06:10.024][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2025-04-18 00:06:10.045][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2025-04-18 00:06:10.056][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:10.058][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:10.059][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:10.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:10.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:10.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:10.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:10.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:10.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:10.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:10.083][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:10.084][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:10.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.086][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:10.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:10.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.092][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:10.094][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:10.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.096][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.097][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:10.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:10.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.102][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:10.104][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:10.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.107][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.109][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:10.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:10.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.114][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:10.115][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:10.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.117][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:10.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:10.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.124][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:10.125][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:10.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.127][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:10.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:10.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.134][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:10.135][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:10.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.137][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.138][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:10.140][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:10.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.142][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.143][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:10.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:10.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.148][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:10.149][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:10.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.152][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:10.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:10.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.158][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:10.159][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:10.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.161][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:10.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:10.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.168][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:10.169][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:10.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.171][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.172][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:10.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:10.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.177][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:10.178][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:10.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.181][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.182][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:10.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:10.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:10.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:10.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:10.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:10.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:10.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:10.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:10.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:10.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:10.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:10.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:10.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:10.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:10.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:10.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:10.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:10.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:10.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:10.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:10.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:10.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:10.235][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-04-18 00:06:10.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:10.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:10.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:10.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:10.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:10.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:10.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:10.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:10.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:10.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:10.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:10.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:10.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:10.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:10.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:10.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:10.264][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-04-18 00:06:10.265][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:10.267][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-04-18 00:06:10.268][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:10.270][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:10.271][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:10.272][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:10.273][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:10.275][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:10.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:10.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:10.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:10.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:10.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:10.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:10.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:10.292][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2025-04-18 00:06:10.295][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:10.296][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:10.298][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2025-04-18 00:06:10.588][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2025-04-18 00:06:10.876][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:10.879][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2025-04-18 00:06:12.405][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2025-04-18 00:06:12.601][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2025-04-18 00:06:12.611][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:12.613][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:12.614][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:12.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:12.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:12.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:12.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:12.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:12.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:12.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:12.631][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:12.633][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:12.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.635][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:12.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:12.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.642][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:12.643][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:12.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.645][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.647][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:12.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:12.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.652][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:12.653][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:12.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.664][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.666][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:12.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:12.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.670][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:12.672][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:12.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.674][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.675][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:12.677][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:12.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.679][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.680][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:12.682][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:12.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.684][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.685][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:12.687][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:12.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.689][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.690][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:12.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:12.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.695][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:12.696][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:12.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.699][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:12.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:12.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.705][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:12.706][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:12.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.709][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.710][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:12.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:12.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.715][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:12.716][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:12.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.719][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.720][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:12.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:12.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.725][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:12.726][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:12.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.728][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:12.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:12.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:12.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:12.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:12.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:12.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:12.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:12.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:12.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:12.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:12.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:12.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:12.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:12.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:12.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:12.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:12.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:12.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:12.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:12.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:12.793][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-04-18 00:06:12.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:12.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:12.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:12.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:12.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:12.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:12.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:12.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:12.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:12.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:12.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:12.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:12.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:12.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:12.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:12.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:12.829][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-04-18 00:06:12.831][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:12.833][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-04-18 00:06:12.834][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:12.835][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:12.837][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:12.838][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:12.839][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:12.840][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:12.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:12.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:12.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:12.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:12.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:12.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:12.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:12.857][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2025-04-18 00:06:12.860][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:12.861][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:12.863][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2025-04-18 00:06:13.154][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2025-04-18 00:06:13.439][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:13.441][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2025-04-18 00:06:13.470][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2025-04-18 00:06:13.922][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2025-04-18 00:06:13.934][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:13.936][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:13.938][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:13.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:13.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:13.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:13.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:13.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:13.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:13.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:13.956][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:13.958][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:13.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:13.960][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:13.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:13.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:13.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:13.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:13.966][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:13.968][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:13.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:13.970][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:13.972][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:13.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:13.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:13.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:13.976][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:13.978][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:13.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:13.980][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:13.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:13.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:13.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:13.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:13.986][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:13.988][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:13.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:13.990][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:13.991][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:13.993][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:13.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:13.995][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:13.997][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:13.998][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:13.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.000][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.002][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:14.003][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:14.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.005][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.007][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:14.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:14.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.012][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:14.013][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:14.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.015][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:14.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:14.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.022][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:14.023][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:14.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.025][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:14.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:14.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.032][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:14.033][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:14.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.035][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.037][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:14.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:14.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.042][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:14.043][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:14.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.045][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:14.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:14.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:14.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:14.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:14.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:14.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:14.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:14.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:14.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:14.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:14.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:14.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:14.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:14.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:14.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:14.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:14.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:14.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:14.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:14.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:14.095][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-04-18 00:06:14.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:14.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:14.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:14.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:14.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:14.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:14.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:14.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:14.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:14.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:14.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:14.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:14.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:14.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:14.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:14.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:14.125][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-04-18 00:06:14.126][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:14.128][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-04-18 00:06:14.129][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:14.131][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:14.132][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:14.133][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:14.135][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:14.136][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:14.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:14.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:14.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:14.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:14.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:14.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:14.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:14.153][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2025-04-18 00:06:14.156][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:14.157][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:14.159][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2025-04-18 00:06:14.460][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2025-04-18 00:06:14.745][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:14.748][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2025-04-18 00:06:14.850][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2025-04-18 00:06:14.953][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2025-04-18 00:06:15.056][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:15.058][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:15.065][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:15.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:15.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:15.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:15.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:15.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:15.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:15.083][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.TRACE[2025-04-18 00:06:15.086][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:15.087][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:15.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.089][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:15.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:15.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.095][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:15.097][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:15.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.099][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.100][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:15.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:15.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.105][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:15.106][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:15.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.109][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.110][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:15.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:15.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.115][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:15.116][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:15.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.118][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:15.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:15.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.125][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:15.126][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:15.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.128][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:15.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:15.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.134][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:15.136][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:15.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.138][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.139][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:15.140][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:15.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.143][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.144][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:15.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:15.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.149][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:15.150][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:15.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.152][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:15.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:15.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.159][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:15.160][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:15.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.162][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:15.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:15.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.169][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:15.170][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:15.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.172][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.174][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:15.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:15.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.178][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:15.180][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:15.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.182][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.183][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:15.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:15.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:15.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:15.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:15.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:15.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:15.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:15.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:15.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:15.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:15.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:15.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:15.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:15.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:15.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:15.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:15.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:15.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:15.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:15.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:15.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:15.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:15.235][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-04-18 00:06:15.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:15.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:15.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:15.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:15.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:15.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:15.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:15.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:15.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:15.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:15.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:15.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:15.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:15.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:15.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:15.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:15.264][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-04-18 00:06:15.265][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:15.267][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-04-18 00:06:15.269][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:15.270][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:15.272][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:15.273][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:15.274][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:15.275][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:15.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:15.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:15.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:15.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:15.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:15.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:15.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:15.294][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2025-04-18 00:06:15.298][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:15.299][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:15.301][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2025-04-18 00:06:15.609][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2025-04-18 00:06:15.896][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:15.898][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2025-04-18 00:06:16.081][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2025-04-18 00:06:16.172][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2025-04-18 00:06:16.264][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:16.266][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:16.268][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:16.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:16.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:16.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:16.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:16.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:16.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:16.282][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.TRACE[2025-04-18 00:06:16.285][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:16.287][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:16.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.289][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:16.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:16.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.295][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:16.297][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:16.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.299][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.300][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:16.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:16.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.305][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:16.306][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:16.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.309][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.310][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:16.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:16.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.315][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:16.316][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:16.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.318][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:16.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:16.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.325][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:16.326][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:16.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.328][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:16.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:16.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.335][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:16.336][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:16.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.339][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.340][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:16.341][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:16.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.344][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.345][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:16.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:16.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.351][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:16.352][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:16.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.355][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:16.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:16.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.361][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:16.363][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:16.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.366][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:16.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:16.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.373][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:16.374][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:16.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.376][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.378][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:16.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:16.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.383][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:16.384][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:16.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.386][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:16.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:16.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:16.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:16.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:16.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:16.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:16.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:16.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:16.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:16.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:16.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:16.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:16.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:16.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:16.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:16.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:16.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:16.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:16.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:16.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:16.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:16.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:16.441][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-04-18 00:06:16.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:16.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:16.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:16.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:16.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:16.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:16.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:16.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:16.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:16.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:16.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:16.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:16.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:16.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:16.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:16.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:16.478][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-04-18 00:06:16.479][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:16.481][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-04-18 00:06:16.482][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:16.484][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:16.485][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:16.486][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:16.488][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:16.489][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:16.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:16.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:16.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:16.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:16.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:16.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:16.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:16.506][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2025-04-18 00:06:16.509][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:16.510][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:16.512][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2025-04-18 00:06:16.828][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2025-04-18 00:06:17.121][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:17.124][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2025-04-18 00:06:17.155][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2025-04-18 00:06:17.177][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2025-04-18 00:06:17.200][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:17.202][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:17.204][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:17.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:17.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:17.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:17.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:17.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:17.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:17.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:17.221][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:17.223][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:17.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.225][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:17.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:17.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.231][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:17.232][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:17.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.235][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.236][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:17.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:17.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.241][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:17.242][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:17.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.244][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.246][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:17.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:17.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.251][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:17.252][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:17.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.254][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.256][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:17.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:17.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.260][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:17.262][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:17.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.264][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.265][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:17.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:17.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.270][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:17.271][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:17.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.274][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.275][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:17.276][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:17.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.278][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.280][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:17.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:17.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.285][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:17.286][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:17.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.288][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:17.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:17.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.295][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:17.296][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:17.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.298][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:17.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:17.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.304][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:17.306][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:17.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.308][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.309][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:17.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:17.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.314][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:17.315][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:17.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.318][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.319][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:17.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:17.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:17.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:17.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:17.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:17.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:17.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:17.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:17.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:17.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:17.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:17.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:17.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:17.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:17.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:17.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:17.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:17.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:17.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:17.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:17.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:17.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:17.372][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-04-18 00:06:17.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:17.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:17.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:17.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:17.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:17.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:17.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:17.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:17.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:17.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:17.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:17.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:17.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:17.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:17.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:17.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:17.404][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-04-18 00:06:17.406][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:17.407][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-04-18 00:06:17.409][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:17.411][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:17.412][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:17.413][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:17.414][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:17.415][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:17.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:17.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:17.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:17.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:17.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:17.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:17.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:17.432][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2025-04-18 00:06:17.436][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:17.437][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:17.438][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2025-04-18 00:06:17.745][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2025-04-18 00:06:18.033][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:18.036][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2025-04-18 00:06:18.054][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2025-04-18 00:06:18.107][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2025-04-18 00:06:18.143][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:18.145][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:18.147][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:18.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:18.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:18.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:18.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:18.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:18.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:18.162][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.TRACE[2025-04-18 00:06:18.165][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:18.166][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:18.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.168][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:18.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:18.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.174][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:18.176][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:18.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.178][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.179][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:18.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:18.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.184][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:18.186][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:18.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.188][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.189][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:18.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:18.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.196][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:18.198][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:18.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.202][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:18.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:18.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.211][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:18.213][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:18.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.217][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:18.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:18.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.227][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:18.229][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:18.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.233][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.235][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:18.237][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:18.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.241][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.243][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:18.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:18.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.251][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:18.253][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:18.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.256][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:18.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:18.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.266][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:18.268][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:18.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.271][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.274][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:18.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:18.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.281][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:18.283][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:18.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.287][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.289][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:18.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:18.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.304][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:18.310][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:18.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.312][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.314][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:18.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:18.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:18.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:18.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:18.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:18.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:18.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:18.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:18.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:18.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:18.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:18.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:18.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:18.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:18.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:18.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:18.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:18.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:18.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:18.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:18.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:18.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:18.367][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-04-18 00:06:18.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:18.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:18.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:18.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:18.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:18.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:18.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:18.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:18.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:18.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:18.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:18.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:18.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:18.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:18.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:18.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:18.398][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-04-18 00:06:18.399][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:18.401][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-04-18 00:06:18.402][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:18.404][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:18.405][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:18.406][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:18.408][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:18.409][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:18.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:18.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:18.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:18.422][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:18.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:18.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:18.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:18.427][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2025-04-18 00:06:18.430][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:18.432][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:18.435][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2025-04-18 00:06:18.750][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2025-04-18 00:06:19.076][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:19.080][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2025-04-18 00:06:19.101][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2025-04-18 00:06:19.125][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2025-04-18 00:06:19.149][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:19.151][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:19.152][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:19.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:19.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:19.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:19.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:19.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:19.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:19.167][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[2025-04-18 00:06:19.170][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:19.171][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:19.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.173][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:19.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:19.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.180][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:19.181][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:19.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.183][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.185][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:19.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:19.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.190][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:19.191][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:19.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.193][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.195][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:19.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:19.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.200][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:19.201][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:19.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.203][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:19.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:19.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.209][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:19.211][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:19.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.213][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.214][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:19.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:19.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.219][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:19.221][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:19.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.223][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.224][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:19.226][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:19.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.228][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.229][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:19.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:19.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.234][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:19.235][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:19.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.238][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:19.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:19.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.244][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:19.245][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:19.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.248][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:19.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:19.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.254][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:19.255][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:19.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.258][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.259][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:19.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:19.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.264][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:19.265][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:19.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.267][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.269][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:19.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:19.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:19.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:19.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:19.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:19.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:19.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:19.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:19.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:19.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:19.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:19.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:19.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:19.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:19.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:19.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:19.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:19.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:19.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:19.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:19.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:19.324][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-04-18 00:06:19.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:19.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:19.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:19.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:19.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:19.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:19.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:19.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:19.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:19.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:19.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:19.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:19.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:19.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:19.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:19.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:19.354][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-04-18 00:06:19.355][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:19.357][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-04-18 00:06:19.358][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:19.360][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:19.361][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:19.362][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:19.366][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:19.368][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:19.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:19.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:19.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:19.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:19.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:19.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:19.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:19.390][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2025-04-18 00:06:19.393][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:19.395][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:19.397][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2025-04-18 00:06:19.733][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2025-04-18 00:06:20.018][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:20.021][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2025-04-18 00:06:20.082][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2025-04-18 00:06:20.100][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2025-04-18 00:06:20.143][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:20.146][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:20.148][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:20.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:20.151][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:20.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:20.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:20.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:20.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:20.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:20.166][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:20.167][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:20.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.170][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:20.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:20.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.177][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:20.178][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:20.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.181][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.182][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:20.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:20.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.187][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:20.189][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:20.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.191][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.193][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:20.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:20.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.207][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:20.209][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:20.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.211][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:20.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:20.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.218][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:20.220][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:20.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.222][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:20.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:20.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.229][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:20.230][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:20.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.233][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.234][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:20.236][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:20.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.238][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.240][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:20.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:20.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.245][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:20.246][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:20.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.249][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:20.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:20.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.256][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:20.257][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:20.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.260][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.261][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:20.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:20.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.267][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:20.268][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:20.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.271][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.272][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:20.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:20.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.277][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:20.279][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:20.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.281][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.283][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:20.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:20.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:20.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:20.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:20.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:20.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:20.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:20.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:20.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:20.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:20.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:20.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:20.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:20.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:20.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:20.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:20.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:20.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:20.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:20.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:20.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:20.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:20.340][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-04-18 00:06:20.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:20.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:20.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:20.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:20.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:20.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:20.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:20.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:20.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:20.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:20.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:20.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:20.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:20.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:20.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:20.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:20.372][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-04-18 00:06:20.373][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:20.375][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-04-18 00:06:20.377][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:20.378][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:20.380][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:20.382][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:20.384][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:20.386][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:20.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:20.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:20.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:20.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:20.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:20.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:20.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:20.408][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2025-04-18 00:06:20.411][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:20.412][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:20.414][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2025-04-18 00:06:20.742][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2025-04-18 00:06:21.029][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:21.032][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2025-04-18 00:06:21.085][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2025-04-18 00:06:21.124][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2025-04-18 00:06:21.394][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:21.396][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:21.398][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:21.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.415][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:21.417][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:21.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.419][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:21.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:21.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.425][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:21.426][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:21.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.428][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.430][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:21.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:21.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.435][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:21.436][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:21.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.438][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.440][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:21.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:21.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.445][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:21.446][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:21.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.448][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:21.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:21.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.454][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:21.455][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:21.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.458][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.459][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:21.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:21.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.464][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:21.465][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:21.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.467][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.469][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:21.470][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.472][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.473][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:21.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.478][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:21.480][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:21.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.482][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:21.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:21.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.488][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:21.489][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:21.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.491][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.493][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:21.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:21.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.498][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:21.499][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:21.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.501][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.503][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:21.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:21.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.508][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:21.509][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:21.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.511][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.513][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:21.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:21.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:21.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:21.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:21.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:21.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:21.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:21.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:21.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:21.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:21.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:21.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:21.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:21.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:21.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:21.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:21.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:21.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:21.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:21.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:21.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:21.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.565][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-04-18 00:06:21.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.610][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:06:21.616][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:21.618][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-04-18 00:06:21.621][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:21.624][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-04-18 00:06:21.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.881][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:21.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:21.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:21.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:21.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:21.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:21.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:21.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:21.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:21.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:21.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:21.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:22.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:22.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:22.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:22.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:22.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:22.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:22.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:22.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:22.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:22.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:22.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:22.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:22.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:22.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:22.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:22.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:22.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:22.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:22.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:22.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:22.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:22.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:22.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:22.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:22.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:22.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:22.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:22.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:22.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:22.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:22.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:22.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:22.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:22.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:22.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:22.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:22.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:22.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:22.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:22.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:22.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:22.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:22.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:22.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:22.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:22.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:22.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:22.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:22.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:22.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:22.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:22.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:22.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:22.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:22.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:22.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:22.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:22.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:22.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:22.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:22.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:22.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:22.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:22.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:22.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:22.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:22.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:22.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:22.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:22.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:22.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:22.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:22.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:22.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:22.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:22.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:22.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:22.372][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:06:22.376][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:22.377][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:22.379][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:22.671][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:22.967][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:22.970][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2025-04-18 00:06:23.819][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2025-04-18 00:06:23.908][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[2025-04-18 00:06:23.912][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:23.913][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:23.915][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:24.218][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:24.505][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:24.507][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2025-04-18 00:06:25.212][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2025-04-18 00:06:25.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:25.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:25.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:25.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:25.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:25.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:25.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:25.285][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-04-18 00:06:25.286][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:25.288][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-04-18 00:06:25.290][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:25.291][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:25.292][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:25.294][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:25.295][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:25.296][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:25.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:25.300][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:25.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:25.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:25.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:25.311][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:25.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:25.316][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2025-04-18 00:06:25.319][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:25.321][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:25.322][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2025-04-18 00:06:25.620][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2025-04-18 00:06:25.923][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:25.926][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2025-04-18 00:06:25.986][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2025-04-18 00:06:26.004][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2025-04-18 00:06:26.025][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:26.027][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:26.029][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:26.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:26.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:26.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:26.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:26.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:26.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:26.044][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[2025-04-18 00:06:26.048][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:26.049][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:26.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.051][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:26.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:26.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.058][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:26.059][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:26.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.061][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.063][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:26.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:26.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.067][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:26.069][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:26.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.071][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.072][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:26.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:26.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.077][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:26.079][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:26.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.081][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:26.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:26.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.087][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:26.088][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:26.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.091][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:26.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:26.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.097][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:26.098][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:26.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.100][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.102][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:26.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:26.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.107][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:26.108][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:26.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.110][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.112][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:26.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:26.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.117][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.118][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.120][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.127][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:26.128][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:26.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.130][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.138][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:26.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:26.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.147][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:26.149][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:26.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.151][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.152][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:26.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:26.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.157][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:26.158][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:26.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.161][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.162][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:26.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:26.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:26.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:26.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:26.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:26.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:26.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:26.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:26.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:26.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:26.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:26.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:26.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:26.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:26.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:26.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:26.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:26.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:26.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:26.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:26.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:26.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:26.214][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-04-18 00:06:26.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:26.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:26.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:26.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:26.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:26.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:26.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:26.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:26.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:26.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:26.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:26.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:26.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:26.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:26.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:26.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:26.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:26.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:26.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:26.271][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-04-18 00:06:26.273][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:26.274][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-04-18 00:06:26.276][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:26.277][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:26.279][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:26.280][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:26.281][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:26.283][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:26.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:26.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:26.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:26.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:26.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:26.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:26.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:26.300][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2025-04-18 00:06:26.303][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:26.305][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:26.306][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2025-04-18 00:06:26.602][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2025-04-18 00:06:26.893][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:26.896][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2025-04-18 00:06:27.008][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2025-04-18 00:06:27.589][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2025-04-18 00:06:27.602][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:27.604][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:27.605][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:27.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:27.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:27.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:27.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:27.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:27.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:27.620][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.TRACE[2025-04-18 00:06:27.623][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:27.624][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:27.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.627][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:27.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:27.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.633][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:27.634][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:27.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.636][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.638][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:27.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:27.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.643][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:27.644][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:27.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.646][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:27.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:27.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.653][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:27.654][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:27.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.656][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.658][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:27.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:27.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.662][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:27.664][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:27.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.666][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:27.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:27.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.672][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:27.674][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:27.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.676][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.677][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:27.679][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:27.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.681][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.682][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:27.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:27.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.688][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:27.690][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:27.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.692][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:27.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:27.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.698][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:27.700][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:27.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.702][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.704][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:27.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:27.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.708][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:27.710][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:27.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.712][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.713][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:27.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:27.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.718][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:27.720][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:27.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.722][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.723][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:27.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:27.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:27.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:27.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:27.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:27.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:27.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:27.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:27.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:27.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:27.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:27.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:27.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:27.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:27.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:27.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:27.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:27.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:27.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:27.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:27.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:27.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:27.776][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-04-18 00:06:27.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:27.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:27.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:27.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:27.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:27.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:27.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:27.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:27.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:27.818][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:06:27.822][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:27.823][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:27.826][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:28.183][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:28.544][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:28.547][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-04-18 00:06:28.572][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-04-18 00:06:28.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:28.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:28.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:28.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.723][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[2025-04-18 00:06:28.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:28.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:28.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:28.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.845][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.TRACE[2025-04-18 00:06:28.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.873][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[2025-04-18 00:06:28.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:28.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:28.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:28.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:28.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:28.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:28.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:28.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:28.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:28.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:28.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:28.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:28.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:28.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:29.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:29.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:29.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:29.007][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.TRACE[2025-04-18 00:06:29.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:29.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:29.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:29.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:29.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:29.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:29.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:29.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:29.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:29.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:29.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:29.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:29.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:29.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:29.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:29.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:29.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:29.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:29.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:29.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:29.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:29.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:29.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:29.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:29.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:29.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:29.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:29.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:29.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:29.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:29.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:29.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:29.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:29.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:29.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:29.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:29.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:29.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:29.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:29.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:29.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:29.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:29.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:29.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:29.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:29.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:29.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:29.211][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.TRACE[2025-04-18 00:06:29.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:29.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:29.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:29.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:29.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:29.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:29.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:29.239][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[2025-04-18 00:06:29.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:29.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:29.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:29.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:29.280][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.INFO [2025-04-18 00:06:29.284][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2025-04-18 00:06:29.287][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:29.288][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:29.290][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:29.646][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:30.003][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:30.005][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-04-18 00:06:30.934][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-04-18 00:06:31.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.302][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[2025-04-18 00:06:31.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.409][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[2025-04-18 00:06:31.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.510][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[2025-04-18 00:06:31.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:31.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:31.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.793][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-04-18 00:06:31.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-04-18 00:06:31.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-04-18 00:06:31.817][biodb::testThat]
biodb.INFO [2025-04-18 00:06:31.819][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-04-18 00:06:31.820][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:31.821][biodb::testThat]
biodb.TRACE[2025-04-18 00:06:31.825][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-18 00:06:31.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-18 00:06:31.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:31.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:31.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:31.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:31.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:31.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:31.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:31.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:31.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:31.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:31.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:31.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:31.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:31.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:31.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:31.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:31.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:31.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:31.868][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[2025-04-18 00:06:31.872][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:31.873][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:31.875][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:32.180][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:32.463][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:32.466][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2025-04-18 00:06:32.496][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2025-04-18 00:06:32.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:32.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:32.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:32.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:32.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:32.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:32.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:32.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:32.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:32.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:32.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:32.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:32.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:32.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:32.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:32.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:32.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:32.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:32.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:32.611][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:06:32.615][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:32.616][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:32.618][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:32.911][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:33.196][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:33.199][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2025-04-18 00:06:33.229][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2025-04-18 00:06:33.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:33.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:33.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:33.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:33.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:33.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:33.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:33.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:33.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:33.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:33.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:33.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:33.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:33.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:33.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:33.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:33.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:33.353][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-04-18 00:06:33.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:33.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:33.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:33.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:33.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:33.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:33.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:33.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.378][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.379][private$selectFields]
biodb.TRACE[2025-04-18 00:06:33.381][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:33.382][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:33.384][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.386][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.388][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.392][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.393][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.395][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.399][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.400][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.401][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.402][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.403][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.406][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.407][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:33.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.430][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-04-18 00:06:33.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:33.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:33.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:33.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:33.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:33.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:33.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:33.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.455][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.456][private$selectFields]
biodb.TRACE[2025-04-18 00:06:33.457][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:33.458][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:33.459][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.460][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.461][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.464][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.465][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.466][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.468][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.470][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.472][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.474][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.476][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.479][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.481][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:33.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.502][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-04-18 00:06:33.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:33.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:33.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:33.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:33.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:33.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:33.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:33.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.531][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.532][private$selectFields]
biodb.TRACE[2025-04-18 00:06:33.533][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:33.534][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:33.536][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.537][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.538][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.540][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.542][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.543][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.545][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.546][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.548][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:33.549][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.550][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.552][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.554][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:33.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:33.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.570][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-04-18 00:06:33.571][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-04-18 00:06:33.572][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-04-18 00:06:33.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:33.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:33.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:33.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:33.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:33.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:33.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:33.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:33.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:33.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:33.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:33.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:33.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:33.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:33.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:33.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:33.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:33.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:33.711][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[2025-04-18 00:06:33.715][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:33.716][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:33.718][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:34.005][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:34.290][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:34.293][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2025-04-18 00:06:34.544][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2025-04-18 00:06:34.570][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:06:34.574][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:34.575][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:34.577][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:34.864][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:35.177][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:35.180][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2025-04-18 00:06:35.304][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2025-04-18 00:06:35.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:35.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:35.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:35.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:35.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:35.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:35.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:35.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:35.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:35.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:35.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:35.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:35.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:35.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:35.403][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.TRACE[2025-04-18 00:06:35.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:35.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:35.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:35.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:35.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:35.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:35.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:35.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:35.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:35.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:35.485][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-04-18 00:06:35.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:35.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:35.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:35.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:35.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:35.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:35.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:35.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.529][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.530][private$selectFields]
biodb.TRACE[2025-04-18 00:06:35.531][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:35.532][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:35.533][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.536][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.538][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.543][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.544][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.545][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.546][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.547][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.550][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.551][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:35.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.567][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-04-18 00:06:35.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:35.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:35.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:35.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:35.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:35.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:35.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:35.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.620][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.621][private$selectFields]
biodb.TRACE[2025-04-18 00:06:35.622][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:35.624][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:35.625][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.626][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.627][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.630][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.631][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.632][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.634][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.635][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.647][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.650][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.652][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.656][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.657][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:35.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.683][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-04-18 00:06:35.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:35.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:35.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:35.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:35.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:35.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:35.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:35.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.723][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.725][private$selectFields]
biodb.TRACE[2025-04-18 00:06:35.727][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:35.740][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:35.741][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.742][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.744][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.746][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.747][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.748][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.750][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.753][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.754][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.755][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.757][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.758][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:35.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.774][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-04-18 00:06:35.775][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-04-18 00:06:35.776][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-04-18 00:06:35.787][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-04-18 00:06:35.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-04-18 00:06:35.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-04-18 00:06:35.798][biodb::testThat]
biodb.INFO [2025-04-18 00:06:35.799][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-04-18 00:06:35.800][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:35.801][biodb::testThat]
biodb.TRACE[2025-04-18 00:06:35.805][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-18 00:06:35.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-18 00:06:35.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:35.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:35.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:35.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:35.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:35.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:35.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:35.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:35.847][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[2025-04-18 00:06:35.850][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:35.852][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-04-18 00:06:35.853][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:35.856][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-04-18 00:06:35.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:35.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:35.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:35.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:35.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:35.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:35.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:35.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:35.887][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[2025-04-18 00:06:35.891][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:35.893][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-04-18 00:06:35.896][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:35.899][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-04-18 00:06:35.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:35.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:35.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:35.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:35.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:35.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:35.914][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[2025-04-18 00:06:35.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:35.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:35.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:35.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:35.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:35.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:35.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:35.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:35.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:35.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:35.960][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-04-18 00:06:35.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:35.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:35.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:35.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:35.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:35.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:35.974][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.TRACE[2025-04-18 00:06:35.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.985][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.986][private$selectFields]
biodb.TRACE[2025-04-18 00:06:35.987][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:35.988][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:35.989][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:35.990][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.992][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.994][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:35.995][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.996][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:35.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:35.998][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.000][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.001][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.002][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.003][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.005][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.006][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:36.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.022][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-04-18 00:06:36.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:36.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.047][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.048][private$selectFields]
biodb.TRACE[2025-04-18 00:06:36.050][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:36.052][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:36.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.055][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.061][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.068][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.070][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.072][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.073][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.075][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.077][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.078][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:36.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.095][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-04-18 00:06:36.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:36.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.120][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.121][private$selectFields]
biodb.TRACE[2025-04-18 00:06:36.122][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:36.123][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:36.124][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.126][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.127][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.131][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.133][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.135][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.138][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.140][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.142][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.143][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.144][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.147][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.148][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:36.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.164][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-04-18 00:06:36.165][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-04-18 00:06:36.166][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-04-18 00:06:36.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:36.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:36.248][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[2025-04-18 00:06:36.254][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:36.256][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-04-18 00:06:36.259][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:36.262][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-04-18 00:06:36.267][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[2025-04-18 00:06:36.271][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:36.273][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-04-18 00:06:36.274][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:36.279][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-04-18 00:06:36.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.292][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:36.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:36.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.325][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.TRACE[2025-04-18 00:06:36.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:36.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:36.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:36.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:36.395][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-04-18 00:06:36.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.410][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.TRACE[2025-04-18 00:06:36.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.421][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.423][private$selectFields]
biodb.TRACE[2025-04-18 00:06:36.424][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:36.425][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:36.426][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.427][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.429][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.431][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.432][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.433][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.436][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.437][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.438][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.439][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.441][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.443][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.444][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:36.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.460][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-04-18 00:06:36.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:36.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.486][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.487][private$selectFields]
biodb.TRACE[2025-04-18 00:06:36.488][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:36.490][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:36.491][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.496][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.497][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.498][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.500][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.502][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.503][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.504][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.505][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.508][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.509][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:36.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.525][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-04-18 00:06:36.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:36.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.561][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.563][private$selectFields]
biodb.TRACE[2025-04-18 00:06:36.565][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:36.567][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:36.569][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.571][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.573][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.576][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.578][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.580][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.584][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.586][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.588][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.590][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.592][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.595][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.597][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:36.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.623][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-04-18 00:06:36.624][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-04-18 00:06:36.626][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-04-18 00:06:36.643][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-04-18 00:06:36.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-04-18 00:06:36.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-04-18 00:06:36.654][biodb::testThat]
biodb.INFO [2025-04-18 00:06:36.655][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-04-18 00:06:36.657][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:36.658][biodb::testThat]
biodb.TRACE[2025-04-18 00:06:36.662][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-18 00:06:36.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-18 00:06:36.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:36.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:36.716][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[2025-04-18 00:06:36.721][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:36.724][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-04-18 00:06:36.726][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:36.730][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-04-18 00:06:36.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:36.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:36.781][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[2025-04-18 00:06:36.787][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:36.790][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-04-18 00:06:36.792][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:36.796][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-04-18 00:06:36.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:36.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:36.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:36.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:36.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:36.891][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-04-18 00:06:36.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.914][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[2025-04-18 00:06:36.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.931][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.933][private$selectFields]
biodb.TRACE[2025-04-18 00:06:36.935][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:36.937][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:36.939][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.941][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.946][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.948][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.950][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.953][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.955][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.957][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:36.959][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.961][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.965][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.966][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:36.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:36.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:36.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:36.983][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-04-18 00:06:36.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:36.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:36.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:36.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:36.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:36.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:36.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:36.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.008][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.009][private$selectFields]
biodb.TRACE[2025-04-18 00:06:37.011][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:37.012][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:37.013][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.014][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.015][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.018][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.020][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.022][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.025][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.028][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.029][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.030][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.033][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.034][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:37.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.050][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-04-18 00:06:37.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:37.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:37.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:37.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:37.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:37.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:37.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:37.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.082][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.084][private$selectFields]
biodb.TRACE[2025-04-18 00:06:37.086][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:37.088][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:37.090][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.091][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.093][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.097][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.099][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.101][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.104][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.106][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.108][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.110][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.112][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.115][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.117][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:37.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.142][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-04-18 00:06:37.144][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-04-18 00:06:37.146][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-04-18 00:06:37.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:37.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:37.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:37.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:37.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:37.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:37.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:37.229][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[2025-04-18 00:06:37.232][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[2025-04-18 00:06:37.235][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:37.237][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-04-18 00:06:37.239][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:37.241][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-04-18 00:06:37.245][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[2025-04-18 00:06:37.248][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:37.250][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-04-18 00:06:37.251][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:37.255][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-04-18 00:06:37.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:37.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:37.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:37.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:37.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:37.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:37.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:37.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:37.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:37.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:37.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:37.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:37.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:37.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:37.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:37.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:37.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:37.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:37.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:37.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:37.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:37.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:37.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:37.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:37.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:37.356][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-04-18 00:06:37.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:37.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:37.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:37.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:37.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:37.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:37.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:37.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.387][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.388][private$selectFields]
biodb.TRACE[2025-04-18 00:06:37.389][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:37.390][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:37.391][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.393][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.394][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.396][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.397][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.398][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.401][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.402][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.403][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.405][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.408][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.409][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:37.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.425][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-04-18 00:06:37.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:37.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:37.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:37.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:37.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:37.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:37.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:37.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.449][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.451][private$selectFields]
biodb.TRACE[2025-04-18 00:06:37.452][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:37.453][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:37.454][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.455][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.459][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.460][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.461][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.463][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.464][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.466][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.467][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.470][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.471][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:37.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.488][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-04-18 00:06:37.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:37.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:37.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:37.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:37.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:37.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:37.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:37.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.530][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.531][private$selectFields]
biodb.TRACE[2025-04-18 00:06:37.533][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-04-18 00:06:37.535][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-04-18 00:06:37.537][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.544][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.546][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.548][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.552][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.554][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.556][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-04-18 00:06:37.558][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.560][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.563][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.565][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-04-18 00:06:37.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:37.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:37.589][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-04-18 00:06:37.591][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-04-18 00:06:37.593][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-04-18 00:06:37.635][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-04-18 00:06:37.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-04-18 00:06:37.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:37.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-04-18 00:06:37.652][biodb::testThat]
biodb.INFO [2025-04-18 00:06:37.654][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-04-18 00:06:37.656][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:37.658][biodb::testThat]
biodb.DEBUG[2025-04-18 00:06:37.661][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-04-18 00:06:37.663][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:37.666][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-04-18 00:06:37.669][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:37.671][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:37.673][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:37.674][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:37.676][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:37.677][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:37.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:37.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:37.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:37.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:37.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:37.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:37.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:37.697][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2025-04-18 00:06:37.702][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:37.704][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:37.706][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2025-04-18 00:06:38.021][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2025-04-18 00:06:38.320][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:38.323][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2025-04-18 00:06:40.658][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2025-04-18 00:06:40.710][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2025-04-18 00:06:41.068][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:41.071][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:41.073][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:41.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:41.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:41.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:41.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:41.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:41.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:41.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:41.098][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:41.100][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:41.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.102][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:41.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:41.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.108][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:41.109][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:41.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.112][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.113][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:41.114][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:41.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.117][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.118][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:41.119][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:41.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.122][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.123][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:41.124][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:41.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.127][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.128][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:41.129][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:41.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.132][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.133][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:41.134][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:41.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.137][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.138][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:41.139][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:41.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.142][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.143][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:41.144][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:41.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.147][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.148][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:41.149][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:41.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.152][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.153][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:41.154][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:41.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.157][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:41.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:41.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:41.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:41.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:41.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:41.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:41.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:41.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:41.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:41.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:41.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:41.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:41.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:41.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:41.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:41.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:41.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:41.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:41.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:41.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:41.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:41.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:41.226][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-04-18 00:06:41.227][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-04-18 00:06:41.248][biodb::testThat]
biodb.INFO [2025-04-18 00:06:41.250][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-04-18 00:06:41.252][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:41.254][biodb::testThat]
biodb.DEBUG[2025-04-18 00:06:41.408][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-04-18 00:06:41.410][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-04-18 00:06:41.411][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-04-18 00:06:41.413][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-04-18 00:06:41.415][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2025-04-18 00:06:41.417][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:41.418][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:41.419][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:41.420][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:41.422][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:41.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:41.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:41.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:41.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:41.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:41.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:41.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:41.440][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2025-04-18 00:06:41.444][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:41.445][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:41.446][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2025-04-18 00:06:41.759][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2025-04-18 00:06:42.445][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:42.447][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2025-04-18 00:06:42.469][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2025-04-18 00:06:42.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:42.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:42.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:42.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:42.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:42.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:42.634][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[2025-04-18 00:06:42.635][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2025-04-18 00:06:42.638][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:42.639][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:42.641][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2025-04-18 00:06:42.937][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2025-04-18 00:06:43.226][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:43.229][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2025-04-18 00:06:43.255][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2025-04-18 00:06:43.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:43.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:43.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:43.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:43.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:43.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:43.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:43.327][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2025-04-18 00:06:43.330][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:43.332][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:43.334][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2025-04-18 00:06:43.635][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2025-04-18 00:06:43.925][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:43.929][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2025-04-18 00:06:44.011][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2025-04-18 00:06:44.043][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2025-04-18 00:06:44.228][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:44.231][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-04-18 00:06:44.233][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:44.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:44.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:44.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:44.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:44.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:44.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:44.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:44.258][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.260][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.262][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.268][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:44.269][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:44.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.272][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.273][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:44.274][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:44.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.276][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.278][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:44.279][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:44.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.282][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.283][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:44.284][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:44.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.287][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.289][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:44.291][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:44.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.294][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.297][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:44.299][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:44.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.302][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.305][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:44.307][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:44.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.310][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.313][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:44.315][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:44.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.318][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.321][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:44.323][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:44.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.326][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.329][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:44.331][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:44.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.334][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:44.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:44.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:44.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:44.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:44.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:44.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:44.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:44.404][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.406][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.408][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.415][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:44.416][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:44.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.418][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.420][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:44.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:44.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.425][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:44.426][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:44.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.428][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.430][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:44.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:44.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.435][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:44.436][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:44.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.438][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:44.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:44.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.446][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:44.447][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:44.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.449][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:44.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:44.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.456][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:44.457][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:44.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.459][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.461][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:44.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:44.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.466][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:44.467][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:44.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.469][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.471][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:44.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:44.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.477][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:44.479][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:44.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.483][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:44.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:44.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.493][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:44.495][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:44.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.499][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.502][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:44.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:44.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.510][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:44.512][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:44.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.516][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.519][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:44.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:44.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.527][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:44.529][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:44.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.532][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.535][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:44.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:44.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:44.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:44.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:44.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:44.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:44.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:44.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:44.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:44.613][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.614][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.617][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.623][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:44.625][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:44.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.627][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.628][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:44.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:44.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.645][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:44.646][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:44.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.648][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:44.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:44.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.655][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:44.656][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:44.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.659][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.660][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:44.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:44.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.665][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:44.667][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:44.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.669][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:44.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:44.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.675][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:44.677][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:44.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.680][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.682][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:44.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:44.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.689][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:44.691][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:44.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.695][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.697][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:44.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:44.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.704][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:44.706][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:44.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.710][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:44.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:44.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.721][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:44.723][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:44.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.727][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:44.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:44.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.738][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:44.740][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:44.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.744][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.746][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:44.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:44.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.754][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:44.756][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:44.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.760][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.762][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:44.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:44.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:44.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:44.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:44.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:44.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:44.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:44.850][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-04-18 00:06:44.852][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-04-18 00:06:44.853][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-04-18 00:06:44.873][biodb::testThat]
biodb.INFO [2025-04-18 00:06:44.875][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-04-18 00:06:44.876][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:44.877][biodb::testThat]
biodb.INFO [2025-04-18 00:06:44.905][biodb::testThat]
biodb.INFO [2025-04-18 00:06:44.907][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-04-18 00:06:44.908][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:44.909][biodb::testThat]
biodb.INFO [2025-04-18 00:06:44.923][biodb::testThat]
biodb.INFO [2025-04-18 00:06:44.924][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-04-18 00:06:44.926][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:44.927][biodb::testThat]
biodb.DEBUG[2025-04-18 00:06:44.930][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[2025-04-18 00:06:44.933][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:44.935][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:44.937][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:45.290][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:45.648][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:45.652][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2025-04-18 00:06:45.680][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2025-04-18 00:06:45.719][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:45.720][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:45.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:45.723][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:45.724][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:45.725][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:45.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:45.728][ef$get] fields variable is a list.
biodb.INFO [2025-04-18 00:06:45.730][biodb::testThat]
biodb.INFO [2025-04-18 00:06:45.732][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-04-18 00:06:45.733][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:45.735][biodb::testThat]
biodb.ERROR[2025-04-18 00:06:45.752][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-04-18 00:06:45.770][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-04-18 00:06:45.784][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-04-18 00:06:45.786][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-04-18 00:06:45.787][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-04-18 00:06:45.789][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-04-18 00:06:45.790][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:45.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:45.792][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:45.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:45.794][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-04-18 00:06:45.808][biodb::testContext]
biodb.INFO [2025-04-18 00:06:45.810][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-18 00:06:45.812][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-04-18 00:06:45.814][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-18 00:06:45.816][biodb::testContext]
biodb.INFO [2025-04-18 00:06:45.820][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-04-18 00:06:45.823][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-04-18 00:06:45.829][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:06:45.830][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-04-18 00:06:45.832][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-04-18 00:06:45.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.837][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-04-18 00:06:45.838][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-04-18 00:06:45.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.843][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-04-18 00:06:45.845][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-04-18 00:06:45.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.850][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-04-18 00:06:45.851][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-04-18 00:06:45.852][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-04-18 00:06:45.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.857][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-04-18 00:06:45.858][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-04-18 00:06:45.859][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-04-18 00:06:45.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.863][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[2025-04-18 00:06:45.864][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-04-18 00:06:45.865][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-04-18 00:06:45.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.871][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-04-18 00:06:45.872][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-04-18 00:06:45.873][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-04-18 00:06:45.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.904][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-04-18 00:06:45.905][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-04-18 00:06:45.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.910][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-04-18 00:06:45.911][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-04-18 00:06:45.912][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-04-18 00:06:45.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.917][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-04-18 00:06:45.919][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-04-18 00:06:45.921][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-04-18 00:06:45.923][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-04-18 00:06:45.925][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-04-18 00:06:45.927][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-04-18 00:06:45.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.933][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-04-18 00:06:45.934][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-04-18 00:06:45.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.939][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-04-18 00:06:45.940][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-04-18 00:06:45.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.944][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-04-18 00:06:45.946][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-04-18 00:06:45.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.950][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-04-18 00:06:45.951][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-04-18 00:06:45.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.956][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-04-18 00:06:45.957][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-04-18 00:06:45.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.962][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-04-18 00:06:45.963][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-04-18 00:06:45.966][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-04-18 00:06:45.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.970][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-04-18 00:06:45.972][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-04-18 00:06:45.973][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-04-18 00:06:45.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:45.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:45.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:45.979][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-04-18 00:06:45.982][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:45.984][self$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[2025-04-18 00:06:45.985][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:45.987][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:45.989][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:45.991][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:45.992][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:45.993][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:45.994][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-18 00:06:45.996][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:45.997][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:45.998][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-04-18 00:06:45.999][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:46.000][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.002][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.003][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:06:46.003][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:06:46.003][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:06:46.003][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-18 00:06:46.003][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-18 00:06:46.004][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:46.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:46.007][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:46.009][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:46.011][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:46.012][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:46.014][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.016][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.017][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:46.018][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:46.019][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.021][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.022][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-04-18 00:06:46.024][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.025][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-04-18 00:06:46.027][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.028][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:46.029][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.030][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.031][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.033][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.034][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-18 00:06:46.035][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:46.036][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.037][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-04-18 00:06:46.039][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:46.040][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.041][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.042][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:06:46.042][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:06:46.042][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:06:46.042][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-18 00:06:46.042][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-18 00:06:46.043][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:46.045][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:46.046][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:46.047][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:46.048][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:46.049][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:46.050][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.052][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.053][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:46.055][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:46.057][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.058][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.059][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-04-18 00:06:46.061][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.062][self$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[2025-04-18 00:06:46.064][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.065][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:46.066][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.067][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.068][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.070][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.071][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-18 00:06:46.072][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:46.073][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.074][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-04-18 00:06:46.076][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:46.077][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.078][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.079][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.080][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:46.082][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:46.083][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:46.084][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:46.085][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:46.086][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:46.088][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.089][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.090][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:46.091][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:46.092][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.093][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.095][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-04-18 00:06:46.097][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.098][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-04-18 00:06:46.099][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.101][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:46.102][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.103][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.104][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.105][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.107][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-18 00:06:46.108][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:46.109][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.110][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-04-18 00:06:46.111][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:46.113][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.114][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.115][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.116][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:46.117][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:46.119][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:46.120][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:46.121][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:46.123][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:46.124][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.125][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.126][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:46.127][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:46.129][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.130][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:46.131][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:06:46.132][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.139][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[2025-04-18 00:06:46.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.162][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[2025-04-18 00:06:46.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.191][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.DEBUG[2025-04-18 00:06:46.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.220][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[2025-04-18 00:06:46.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.244][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[2025-04-18 00:06:46.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.256][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-04-18 00:06:46.258][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-04-18 00:06:46.261][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-04-18 00:06:46.264][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-04-18 00:06:46.266][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-18 00:06:46.269][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-18 00:06:46.272][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-04-18 00:06:46.274][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-04-18 00:06:46.276][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-04-18 00:06:46.279][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-18 00:06:46.281][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-18 00:06:46.284][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-04-18 00:06:46.286][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-04-18 00:06:46.288][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-04-18 00:06:46.291][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-04-18 00:06:46.293][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-18 00:06:46.295][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-04-18 00:06:46.298][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-04-18 00:06:46.300][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-18 00:06:46.302][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-04-18 00:06:46.305][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-04-18 00:06:46.307][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-04-18 00:06:46.309][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-04-18 00:06:46.312][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-04-18 00:06:46.314][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-04-18 00:06:46.317][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-04-18 00:06:46.319][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-04-18 00:06:46.321][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-04-18 00:06:46.324][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-04-18 00:06:46.326][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-04-18 00:06:46.328][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-04-18 00:06:46.331][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-04-18 00:06:46.333][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-04-18 00:06:46.336][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-04-18 00:06:46.338][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-04-18 00:06:46.341][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-04-18 00:06:46.344][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-04-18 00:06:46.346][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-04-18 00:06:46.349][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-04-18 00:06:46.351][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-04-18 00:06:46.354][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-04-18 00:06:46.356][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-04-18 00:06:46.359][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-04-18 00:06:46.361][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-04-18 00:06:46.364][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-04-18 00:06:46.366][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-04-18 00:06:46.369][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-04-18 00:06:46.371][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-04-18 00:06:46.374][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-04-18 00:06:46.376][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-04-18 00:06:46.377][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-04-18 00:06:46.379][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-04-18 00:06:46.381][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-04-18 00:06:46.382][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-04-18 00:06:46.384][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-04-18 00:06:46.385][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-04-18 00:06:46.387][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-04-18 00:06:46.389][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-04-18 00:06:46.390][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-04-18 00:06:46.399][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-04-18 00:06:46.401][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-04-18 00:06:46.403][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-04-18 00:06:46.404][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-04-18 00:06:46.406][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-04-18 00:06:46.407][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-04-18 00:06:46.409][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-04-18 00:06:46.410][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-18 00:06:46.412][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-18 00:06:46.414][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-04-18 00:06:46.415][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-04-18 00:06:46.417][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-04-18 00:06:46.419][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-04-18 00:06:46.420][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-04-18 00:06:46.422][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-04-18 00:06:46.423][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-04-18 00:06:46.425][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-04-18 00:06:46.426][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-04-18 00:06:46.428][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-04-18 00:06:46.431][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-04-18 00:06:46.433][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-04-18 00:06:46.436][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-04-18 00:06:46.438][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-04-18 00:06:46.441][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-04-18 00:06:46.443][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-04-18 00:06:46.447][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-04-18 00:06:46.449][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:06:46.451][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.454][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.503][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.DEBUG[2025-04-18 00:06:46.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.527][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.DEBUG[2025-04-18 00:06:46.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.562][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[2025-04-18 00:06:46.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.586][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.DEBUG[2025-04-18 00:06:46.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.597][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[2025-04-18 00:06:46.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.625][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[2025-04-18 00:06:46.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.637][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[2025-04-18 00:06:46.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:46.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:46.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:46.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:46.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:46.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:46.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:46.653][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-04-18 00:06:46.669][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-04-18 00:06:46.673][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.675][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.677][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.679][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:46.681][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.683][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.685][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.687][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-04-18 00:06:46.689][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-04-18 00:06:46.691][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:46.693][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.695][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-04-18 00:06:46.696][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:46.698][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-04-18 00:06:46.698][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-04-18 00:06:46.698][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-04-18 00:06:46.698][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-04-18 00:06:46.698][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-04-18 00:06:46.698][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-04-18 00:06:46.698][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-04-18 00:06:46.698][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-04-18 00:06:46.698][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-04-18 00:06:46.698][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-04-18 00:06:46.698][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-04-18 00:06:46.701][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:46.702][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:06:46.702][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:06:46.702][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:06:46.704][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-04-18 00:06:46.706][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:46.708][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:46.710][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:46.711][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:46.713][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:46.715][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:46.717][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:46.717][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-04-18 00:06:46.719][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:46.720][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:46.722][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:46.724][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-04-18 00:06:46.724][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-04-18 00:06:46.727][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-18 00:06:46.729][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-18 00:06:46.732][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-04-18 00:06:46.735][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-18 00:06:46.738][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-18 00:06:46.740][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-18 00:06:46.746][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-04-18 00:06:46.748][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-04-18 00:06:46.750][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-04-18 00:06:46.753][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-04-18 00:06:46.755][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-18 00:06:46.757][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-18 00:06:46.760][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-04-18 00:06:46.762][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-04-18 00:06:46.765][biodb::testThat]
biodb.INFO [2025-04-18 00:06:46.767][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-04-18 00:06:46.768][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:46.770][biodb::testThat]
biodb.DEBUG[2025-04-18 00:06:46.777][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-04-18 00:06:46.785][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:46.787][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:46.789][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2025-04-18 00:06:47.075][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2025-04-18 00:06:47.473][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:47.476][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2025-04-18 00:06:47.498][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2025-04-18 00:06:47.519][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[2025-04-18 00:06:47.524][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:47.526][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:47.528][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:47.817][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:48.105][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:48.108][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2025-04-18 00:06:48.126][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2025-04-18 00:06:48.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:48.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:48.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:48.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:48.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:48.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:48.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:48.168][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:06:48.174][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:48.176][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:48.179][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:48.470][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:48.757][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:48.760][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2025-04-18 00:06:48.787][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2025-04-18 00:06:48.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:48.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:48.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:48.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:48.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:48.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:48.816][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[2025-04-18 00:06:48.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:48.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:48.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:48.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:48.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:48.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:48.845][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[2025-04-18 00:06:48.850][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[2025-04-18 00:06:48.855][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:48.857][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-04-18 00:06:48.858][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:48.861][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-04-18 00:06:48.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:48.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:48.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:48.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:48.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:48.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:48.876][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[2025-04-18 00:06:48.889][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[2025-04-18 00:06:48.894][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:48.895][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-04-18 00:06:48.897][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:48.900][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-04-18 00:06:48.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:48.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:48.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:48.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:48.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:48.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:48.915][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[2025-04-18 00:06:48.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:48.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:48.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:48.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:48.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:48.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:48.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:48.938][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[2025-04-18 00:06:48.944][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:48.947][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-04-18 00:06:48.950][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:48.953][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-04-18 00:06:48.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:48.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:48.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:48.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:48.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:48.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:48.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:48.980][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[2025-04-18 00:06:48.984][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:48.985][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-04-18 00:06:48.987][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:48.990][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-04-18 00:06:48.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:48.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:48.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:49.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:49.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:49.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:49.007][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[2025-04-18 00:06:49.010][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[2025-04-18 00:06:49.014][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:49.015][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:49.017][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:49.310][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:49.596][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:49.599][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2025-04-18 00:06:49.619][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2025-04-18 00:06:49.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:49.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:49.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:49.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:49.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:49.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:49.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-04-18 00:06:49.666][biodb::testThat]
biodb.INFO [2025-04-18 00:06:49.667][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-04-18 00:06:49.669][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:49.670][biodb::testThat]
biodb.DEBUG[2025-04-18 00:06:49.674][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:06:49.679][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:49.681][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:49.684][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:50.029][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:50.319][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:50.322][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2025-04-18 00:06:50.343][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2025-04-18 00:06:50.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:50.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:50.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:50.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:50.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:50.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:50.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:50.385][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[2025-04-18 00:06:50.389][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:50.390][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:50.393][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:50.678][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:50.975][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:50.979][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2025-04-18 00:06:50.993][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2025-04-18 00:06:51.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:51.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-04-18 00:06:51.050][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-04-18 00:06:51.052][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-04-18 00:06:51.054][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-04-18 00:06:51.056][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-04-18 00:06:51.057][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.059][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.061][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-04-18 00:06:51.068][biodb::testContext]
biodb.INFO [2025-04-18 00:06:51.070][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-18 00:06:51.071][biodb::testContext] Test context - Test web services
biodb.INFO [2025-04-18 00:06:51.072][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-18 00:06:51.074][biodb::testContext]
biodb.INFO [2025-04-18 00:06:51.076][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-04-18 00:06:51.079][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-04-18 00:06:51.084][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:06:51.086][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-04-18 00:06:51.087][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-04-18 00:06:51.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.095][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-04-18 00:06:51.097][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-04-18 00:06:51.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.103][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-04-18 00:06:51.105][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-04-18 00:06:51.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.109][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-04-18 00:06:51.110][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-04-18 00:06:51.111][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-04-18 00:06:51.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.116][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-04-18 00:06:51.117][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-04-18 00:06:51.118][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-04-18 00:06:51.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.122][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[2025-04-18 00:06:51.123][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-04-18 00:06:51.124][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-04-18 00:06:51.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.129][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-04-18 00:06:51.130][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-04-18 00:06:51.131][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-04-18 00:06:51.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.135][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.DEBUG[2025-04-18 00:06:51.136][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-04-18 00:06:51.137][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-04-18 00:06:51.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.141][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-04-18 00:06:51.143][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-04-18 00:06:51.144][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-04-18 00:06:51.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.149][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-04-18 00:06:51.151][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-04-18 00:06:51.152][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-04-18 00:06:51.153][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-04-18 00:06:51.154][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-04-18 00:06:51.156][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-04-18 00:06:51.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.160][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-04-18 00:06:51.162][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-04-18 00:06:51.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.166][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-04-18 00:06:51.167][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-04-18 00:06:51.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.173][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-04-18 00:06:51.174][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-04-18 00:06:51.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.179][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-04-18 00:06:51.181][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-04-18 00:06:51.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.188][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-04-18 00:06:51.190][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-04-18 00:06:51.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.198][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-04-18 00:06:51.200][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-04-18 00:06:51.204][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-04-18 00:06:51.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.209][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-04-18 00:06:51.211][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-04-18 00:06:51.212][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-04-18 00:06:51.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.219][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-04-18 00:06:51.221][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.222][self$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[2025-04-18 00:06:51.223][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.225][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:51.226][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.228][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.230][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.232][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.234][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-18 00:06:51.236][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:51.237][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.239][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-04-18 00:06:51.241][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:51.243][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.247][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.249][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:06:51.249][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:06:51.249][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:06:51.249][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-18 00:06:51.249][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-18 00:06:51.251][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:51.253][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:51.255][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:51.257][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:51.259][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:51.261][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:51.263][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.264][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.266][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:51.268][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:51.270][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.272][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.274][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-04-18 00:06:51.277][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.279][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-04-18 00:06:51.281][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.283][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:51.285][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.287][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.289][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.291][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.293][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-18 00:06:51.295][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:51.297][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.299][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-04-18 00:06:51.301][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:51.303][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.305][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.307][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:06:51.307][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:06:51.307][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:06:51.307][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-18 00:06:51.307][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-18 00:06:51.309][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:51.311][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:51.313][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:51.315][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:51.317][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:51.319][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:51.320][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.322][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.324][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:51.325][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:51.327][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.329][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.332][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-04-18 00:06:51.344][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.351][self$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[2025-04-18 00:06:51.353][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.355][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:51.356][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.357][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.358][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.359][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.361][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-18 00:06:51.362][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:51.363][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.364][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-04-18 00:06:51.365][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:51.366][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.368][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.369][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.370][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:51.371][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:51.372][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:51.373][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:51.375][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:51.376][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:51.377][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.378][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.379][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:51.381][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:51.382][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.384][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.385][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-04-18 00:06:51.387][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.388][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-04-18 00:06:51.389][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.390][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:51.392][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.394][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.395][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.396][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.397][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-18 00:06:51.398][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:51.400][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.401][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-04-18 00:06:51.402][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:51.403][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.404][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.405][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.407][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:51.408][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:51.409][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:51.410][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:51.411][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:51.413][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:51.414][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.416][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.418][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:51.420][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:51.422][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.423][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:51.426][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:06:51.428][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.429][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.DEBUG[2025-04-18 00:06:51.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.437][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[2025-04-18 00:06:51.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.446][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[2025-04-18 00:06:51.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.463][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[2025-04-18 00:06:51.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.471][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[2025-04-18 00:06:51.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.503][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.DEBUG[2025-04-18 00:06:51.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.508][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.DEBUG[2025-04-18 00:06:51.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.555][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-04-18 00:06:51.558][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-04-18 00:06:51.561][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-04-18 00:06:51.563][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-04-18 00:06:51.566][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-18 00:06:51.569][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-18 00:06:51.571][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-04-18 00:06:51.574][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-04-18 00:06:51.576][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-04-18 00:06:51.579][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-18 00:06:51.581][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-18 00:06:51.584][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-04-18 00:06:51.586][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-04-18 00:06:51.588][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-04-18 00:06:51.591][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-04-18 00:06:51.593][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-18 00:06:51.596][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-04-18 00:06:51.598][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-04-18 00:06:51.601][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-18 00:06:51.603][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-04-18 00:06:51.606][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-04-18 00:06:51.608][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-04-18 00:06:51.611][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-04-18 00:06:51.614][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-04-18 00:06:51.616][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-04-18 00:06:51.619][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-04-18 00:06:51.622][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-04-18 00:06:51.624][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-04-18 00:06:51.626][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-04-18 00:06:51.629][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-04-18 00:06:51.631][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-04-18 00:06:51.634][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-04-18 00:06:51.636][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-04-18 00:06:51.639][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-04-18 00:06:51.641][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-04-18 00:06:51.643][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-04-18 00:06:51.646][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-04-18 00:06:51.648][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-04-18 00:06:51.651][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-04-18 00:06:51.653][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-04-18 00:06:51.656][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-04-18 00:06:51.658][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-04-18 00:06:51.661][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-04-18 00:06:51.663][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-04-18 00:06:51.665][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-04-18 00:06:51.667][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-04-18 00:06:51.668][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-04-18 00:06:51.670][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-04-18 00:06:51.672][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-04-18 00:06:51.673][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-04-18 00:06:51.675][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-04-18 00:06:51.676][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-04-18 00:06:51.678][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-04-18 00:06:51.679][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-04-18 00:06:51.681][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-04-18 00:06:51.683][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-04-18 00:06:51.686][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-04-18 00:06:51.688][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-04-18 00:06:51.691][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-04-18 00:06:51.692][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-04-18 00:06:51.694][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-04-18 00:06:51.695][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-04-18 00:06:51.697][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-04-18 00:06:51.699][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-04-18 00:06:51.701][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-04-18 00:06:51.702][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-04-18 00:06:51.704][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-18 00:06:51.705][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-18 00:06:51.707][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-04-18 00:06:51.708][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-04-18 00:06:51.710][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-04-18 00:06:51.712][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-04-18 00:06:51.714][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-04-18 00:06:51.717][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-04-18 00:06:51.718][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-04-18 00:06:51.720][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-04-18 00:06:51.721][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-04-18 00:06:51.723][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-04-18 00:06:51.725][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-04-18 00:06:51.726][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-04-18 00:06:51.728][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-04-18 00:06:51.729][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-04-18 00:06:51.731][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-04-18 00:06:51.732][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-04-18 00:06:51.735][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-04-18 00:06:51.736][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:06:51.737][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.739][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.828][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[2025-04-18 00:06:51.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.840][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[2025-04-18 00:06:51.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:51.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:51.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:51.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:51.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:51.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:51.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:51.925][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-04-18 00:06:51.927][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-04-18 00:06:51.929][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.930][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.932][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.934][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:51.936][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.938][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.940][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.942][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-04-18 00:06:51.943][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-04-18 00:06:51.945][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:51.947][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.948][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-04-18 00:06:51.949][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:51.950][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-04-18 00:06:51.950][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-04-18 00:06:51.950][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-04-18 00:06:51.950][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-04-18 00:06:51.950][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-04-18 00:06:51.950][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-04-18 00:06:51.950][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-04-18 00:06:51.950][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-04-18 00:06:51.950][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-04-18 00:06:51.950][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-04-18 00:06:51.950][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-04-18 00:06:51.952][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:51.953][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:06:51.953][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:06:51.953][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:06:51.954][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-04-18 00:06:51.955][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:51.956][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:51.958][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:51.959][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:51.960][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:51.961][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:51.963][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:51.963][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-04-18 00:06:51.964][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:51.966][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:51.968][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:51.970][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-04-18 00:06:51.970][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-04-18 00:06:51.972][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-18 00:06:51.975][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-18 00:06:51.978][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-04-18 00:06:51.980][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-18 00:06:51.983][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-18 00:06:51.986][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-18 00:06:51.992][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-04-18 00:06:51.994][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-04-18 00:06:51.996][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-04-18 00:06:51.999][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-04-18 00:06:52.001][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-18 00:06:52.003][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-18 00:06:52.006][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-04-18 00:06:52.008][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-04-18 00:06:52.011][biodb::testThat]
biodb.INFO [2025-04-18 00:06:52.012][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-04-18 00:06:52.014][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:52.015][biodb::testThat]
biodb.DEBUG[2025-04-18 00:06:52.018][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-04-18 00:06:52.024][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:52.026][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-04-18 00:06:52.029][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:52.033][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-04-18 00:06:52.039][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-04-18 00:06:52.044][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:52.045][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:52.047][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-04-18 00:06:52.337][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-04-18 00:06:52.623][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:52.626][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2025-04-18 00:06:52.651][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2025-04-18 00:06:52.675][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-04-18 00:06:52.677][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-04-18 00:06:52.679][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-04-18 00:06:52.680][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-04-18 00:06:52.681][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:52.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:52.683][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:52.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:52.685][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.687][FUN] Functions in observer BiodbConfig: [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 [2025-04-18 00:06:52.692][biodb::testContext]
biodb.INFO [2025-04-18 00:06:52.694][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-18 00:06:52.695][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-04-18 00:06:52.696][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-18 00:06:52.698][biodb::testContext]
biodb.INFO [2025-04-18 00:06:52.702][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-04-18 00:06:52.705][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-04-18 00:06:52.713][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:06:52.716][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-04-18 00:06:52.718][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-04-18 00:06:52.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.724][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-04-18 00:06:52.726][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-04-18 00:06:52.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.733][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-04-18 00:06:52.735][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-04-18 00:06:52.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.741][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-04-18 00:06:52.743][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-04-18 00:06:52.745][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-04-18 00:06:52.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.752][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-04-18 00:06:52.754][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-04-18 00:06:52.755][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-04-18 00:06:52.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.762][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-04-18 00:06:52.764][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-04-18 00:06:52.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.771][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-04-18 00:06:52.772][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-04-18 00:06:52.774][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-04-18 00:06:52.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.781][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-04-18 00:06:52.783][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-04-18 00:06:52.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.787][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[2025-04-18 00:06:52.789][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-04-18 00:06:52.791][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-04-18 00:06:52.793][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-04-18 00:06:52.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.799][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-04-18 00:06:52.801][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-04-18 00:06:52.803][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-04-18 00:06:52.805][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-04-18 00:06:52.807][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-04-18 00:06:52.809][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-04-18 00:06:52.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.815][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-04-18 00:06:52.817][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-04-18 00:06:52.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.824][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-04-18 00:06:52.825][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-04-18 00:06:52.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.832][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-04-18 00:06:52.834][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-04-18 00:06:52.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.840][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-04-18 00:06:52.842][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-04-18 00:06:52.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.849][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-04-18 00:06:52.851][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-04-18 00:06:52.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.857][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-04-18 00:06:52.859][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-04-18 00:06:52.864][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-04-18 00:06:52.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.871][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-04-18 00:06:52.873][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-04-18 00:06:52.874][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-04-18 00:06:52.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:52.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:52.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:52.881][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-04-18 00:06:52.884][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:52.886][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-04-18 00:06:52.888][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:52.890][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:52.892][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:52.894][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:52.896][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:52.898][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:52.900][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-18 00:06:52.902][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:52.904][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:52.906][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-04-18 00:06:52.908][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:52.909][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:52.911][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:52.913][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:06:52.913][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:06:52.913][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:06:52.913][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-18 00:06:52.913][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-18 00:06:52.914][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:52.915][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:52.916][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:52.918][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:52.920][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:52.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:52.924][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:52.925][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:52.927][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:52.929][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:52.931][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:52.933][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:52.935][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-04-18 00:06:52.937][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:52.938][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-04-18 00:06:52.939][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:52.940][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:52.942][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:52.943][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:52.944][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:52.945][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:52.946][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-18 00:06:52.948][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:52.950][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:52.952][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-04-18 00:06:52.954][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:52.956][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:52.957][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:52.959][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:06:52.959][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:06:52.959][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:06:52.959][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-18 00:06:52.959][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-18 00:06:52.961][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:52.963][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:52.965][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:52.967][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:52.969][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:52.971][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:52.973][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:52.975][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:52.977][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:52.979][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:52.980][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:52.982][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:52.985][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-04-18 00:06:52.988][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:52.989][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-04-18 00:06:52.990][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:52.992][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:52.993][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:52.994][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:52.996][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:52.997][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:52.999][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-18 00:06:53.001][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:53.003][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:53.005][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-04-18 00:06:53.007][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:53.009][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:53.011][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:53.012][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:53.014][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:53.016][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:53.017][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:53.019][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:53.020][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:53.021][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:53.023][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:53.025][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:53.026][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:53.027][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:53.029][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:53.030][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:53.033][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-04-18 00:06:53.036][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:53.038][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-04-18 00:06:53.040][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:53.042][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:53.044][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:53.046][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:53.048][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:53.061][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-18 00:06:53.063][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-18 00:06:53.065][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:53.066][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:53.068][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-04-18 00:06:53.069][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:53.070][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:53.071][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:53.073][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:53.074][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-18 00:06:53.076][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:53.077][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:53.078][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:53.079][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:53.080][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:53.081][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:53.083][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:53.084][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:53.085][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:53.086][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:53.087][self$setPropertyValue]
biodb.DEBUG[2025-04-18 00:06:53.089][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:06:53.090][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.091][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[2025-04-18 00:06:53.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.107][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.DEBUG[2025-04-18 00:06:53.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.135][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.DEBUG[2025-04-18 00:06:53.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.143][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[2025-04-18 00:06:53.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.163][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.DEBUG[2025-04-18 00:06:53.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.207][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-04-18 00:06:53.209][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-04-18 00:06:53.211][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-04-18 00:06:53.212][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-04-18 00:06:53.214][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-18 00:06:53.216][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-18 00:06:53.218][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-04-18 00:06:53.221][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-04-18 00:06:53.223][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-04-18 00:06:53.226][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-18 00:06:53.228][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-18 00:06:53.231][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-04-18 00:06:53.233][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-04-18 00:06:53.236][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-04-18 00:06:53.238][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-04-18 00:06:53.240][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-18 00:06:53.242][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-04-18 00:06:53.243][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-04-18 00:06:53.245][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-18 00:06:53.247][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-04-18 00:06:53.248][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-04-18 00:06:53.250][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-04-18 00:06:53.251][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-04-18 00:06:53.253][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-04-18 00:06:53.255][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-04-18 00:06:53.256][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-04-18 00:06:53.258][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-04-18 00:06:53.260][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-04-18 00:06:53.261][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-04-18 00:06:53.263][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-04-18 00:06:53.264][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-04-18 00:06:53.266][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-04-18 00:06:53.268][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-04-18 00:06:53.269][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-04-18 00:06:53.271][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-04-18 00:06:53.272][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-04-18 00:06:53.274][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-04-18 00:06:53.276][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-04-18 00:06:53.277][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-04-18 00:06:53.279][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-04-18 00:06:53.280][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-04-18 00:06:53.282][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-04-18 00:06:53.283][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-04-18 00:06:53.285][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-04-18 00:06:53.287][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-04-18 00:06:53.288][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-04-18 00:06:53.290][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-04-18 00:06:53.291][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-04-18 00:06:53.293][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-04-18 00:06:53.296][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-04-18 00:06:53.297][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-04-18 00:06:53.299][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-04-18 00:06:53.301][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-04-18 00:06:53.302][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-04-18 00:06:53.304][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-04-18 00:06:53.305][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-04-18 00:06:53.307][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-04-18 00:06:53.308][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-04-18 00:06:53.310][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-04-18 00:06:53.312][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-04-18 00:06:53.313][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-04-18 00:06:53.315][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-04-18 00:06:53.316][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-04-18 00:06:53.318][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-04-18 00:06:53.319][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-04-18 00:06:53.321][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-04-18 00:06:53.323][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-18 00:06:53.324][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-18 00:06:53.326][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-04-18 00:06:53.327][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-04-18 00:06:53.329][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-04-18 00:06:53.330][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-04-18 00:06:53.332][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-04-18 00:06:53.333][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-04-18 00:06:53.335][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-04-18 00:06:53.337][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-04-18 00:06:53.338][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-04-18 00:06:53.340][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-04-18 00:06:53.341][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-04-18 00:06:53.343][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-04-18 00:06:53.345][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-04-18 00:06:53.346][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-04-18 00:06:53.348][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-04-18 00:06:53.349][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-04-18 00:06:53.352][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-04-18 00:06:53.353][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-18 00:06:53.355][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.359][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.385][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[2025-04-18 00:06:53.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.410][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[2025-04-18 00:06:53.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.459][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.DEBUG[2025-04-18 00:06:53.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.528][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[2025-04-18 00:06:53.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-18 00:06:53.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-18 00:06:53.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.562][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[2025-04-18 00:06:53.566][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-04-18 00:06:53.568][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-04-18 00:06:53.570][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:53.572][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-04-18 00:06:53.574][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:53.576][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-18 00:06:53.577][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:53.578][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-18 00:06:53.580][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:53.581][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-04-18 00:06:53.582][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-04-18 00:06:53.584][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-18 00:06:53.585][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:53.586][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-04-18 00:06:53.588][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-18 00:06:53.589][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-04-18 00:06:53.589][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-04-18 00:06:53.589][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-04-18 00:06:53.589][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-04-18 00:06:53.589][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-04-18 00:06:53.589][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-04-18 00:06:53.589][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-04-18 00:06:53.589][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-04-18 00:06:53.589][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-04-18 00:06:53.589][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-04-18 00:06:53.589][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-04-18 00:06:53.591][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-04-18 00:06:53.593][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-18 00:06:53.593][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-18 00:06:53.593][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-18 00:06:53.595][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-04-18 00:06:53.597][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:53.598][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:53.600][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-18 00:06:53.602][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-18 00:06:53.604][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-18 00:06:53.606][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-18 00:06:53.608][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:53.608][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-04-18 00:06:53.609][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-18 00:06:53.611][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-18 00:06:53.613][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-04-18 00:06:53.615][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-04-18 00:06:53.615][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-04-18 00:06:53.617][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-18 00:06:53.620][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-18 00:06:53.623][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-04-18 00:06:53.625][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-18 00:06:53.628][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-18 00:06:53.631][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-18 00:06:53.636][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-04-18 00:06:53.638][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-04-18 00:06:53.640][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-04-18 00:06:53.644][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-04-18 00:06:53.646][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-18 00:06:53.648][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-18 00:06:53.651][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-04-18 00:06:53.653][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-04-18 00:06:53.656][biodb::testThat]
biodb.INFO [2025-04-18 00:06:53.658][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-04-18 00:06:53.660][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-18 00:06:53.662][biodb::testThat]
biodb.DEBUG[2025-04-18 00:06:53.667][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-04-18 00:06:53.674][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:53.677][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-04-18 00:06:53.679][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:53.684][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-04-18 00:06:53.690][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[2025-04-18 00:06:53.695][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-04-18 00:06:53.698][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-04-18 00:06:53.701][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-18 00:06:53.705][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-04-18 00:06:53.724][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-04-18 00:06:53.726][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-04-18 00:06:53.730][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-04-18 00:06:53.732][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-18 00:06:53.735][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-18 00:06:53.737][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-04-18 00:06:53.739][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-04-18 00:06:53.741][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-04-18 00:06:53.743][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-04-18 00:06:53.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:53.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:53.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:53.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:53.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:53.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:53.767][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[2025-04-18 00:06:53.769][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2025-04-18 00:06:53.774][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-04-18 00:06:53.776][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-04-18 00:06:53.779][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2025-04-18 00:06:54.506][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2025-04-18 00:06:55.072][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-04-18 00:06:55.075][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2025-04-18 00:06:55.097][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2025-04-18 00:06:55.116][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2025-04-18 00:06:55.143][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-04-18 00:06:55.146][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-04-18 00:06:55.148][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-04-18 00:06:55.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-18 00:06:55.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:55.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:55.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:55.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:55.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:55.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-18 00:06:55.174][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:55.175][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:55.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.177][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:55.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:55.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.184][ef$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:55.185][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:55.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.188][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.191][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-04-18 00:06:55.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-04-18 00:06:55.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.199][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:55.200][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:55.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.203][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.205][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-18 00:06:55.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-18 00:06:55.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.209][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-18 00:06:55.211][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-18 00:06:55.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.213][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.215][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-18 00:06:55.216][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-18 00:06:55.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.219][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.220][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:55.222][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:55.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.224][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.226][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:55.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-18 00:06:55.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.231][ef$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:55.233][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:55.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.235][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.237][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-04-18 00:06:55.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-18 00:06:55.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.242][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:55.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:55.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.245][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:55.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-18 00:06:55.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.253][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:55.254][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:55.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.256][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-18 00:06:55.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-18 00:06:55.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.263][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:55.265][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:55.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.268][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.270][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-04-18 00:06:55.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-04-18 00:06:55.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.275][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:55.276][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:55.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.278][ef$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.280][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-18 00:06:55.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-18 00:06:55.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:55.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:55.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:55.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:55.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:55.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:55.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-18 00:06:55.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-18 00:06:55.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:55.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:55.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:55.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:55.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:55.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:55.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:55.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:55.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:55.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:55.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-18 00:06:55.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-18 00:06:55.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-18 00:06:55.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-18 00:06:55.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-18 00:06:55.334][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-04-18 00:06:55.340][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-04-18 00:06:55.342][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-04-18 00:06:55.343][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-04-18 00:06:55.344][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-04-18 00:06:55.345][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-18 00:06:55.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-18 00:06:55.347][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-18 00:06:55.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-18 00:06:55.350][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-04-18 00:06:55.351][FUN] Functions in observer 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 386 ]
> 
> proc.time()
   user  system elapsed 
  23.62    2.42   69.96

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn 3.29 2.3989.92
ChebiEntry0.580.020.60